Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold494
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 556777
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:310791 original size:28 final size:28
Alignment explanation
Indices: 310751--310824 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 28
310741 GATATAAAGC
310751 CAGGGTTGGAGTATCTCCTCG-GAAATAA
1 CAGGGTTGGAGTATCTCC-CGAGAAATAA
310779 CAGGGTTGGAGTATC-CCCGATGAAATAA
1 CAGGGTTGGAGTATCTCCCGA-GAAATAA
*
310807 CGGGGTTGGAGTATCTCC
1 CAGGGTTGGAGTATCTCC
310825 AATTGTGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 36 0.86
29 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (28 bp):
CAGGGTTGGAGTATCTCCCGAGAAATAA
Found at i:310972 original size:28 final size:26
Alignment explanation
Indices: 310909--310980 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 26
310899 GAAATAAAAT
310909 CGGGGTTGGAGTATCCCCCGAAAATAA
1 CGGGGTTGGAGTAT-CCCCGAAAATAA
* *
310936 CGAGATTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGA--AAATAA
310964 CGGGGTTGGAGTA-CCCC
1 CGGGGTTGGAGTATCCCC
310981 TGATTATGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 6 0.15
27 16 0.41
28 17 0.44
ACGTcount: A:0.28, C:0.22, G:0.31, T:0.19
Consensus pattern (26 bp):
CGGGGTTGGAGTATCCCCGAAAATAA
Found at i:311015 original size:266 final size:266
Alignment explanation
Indices: 310540--311192 Score: 1006
Period size: 266 Copynumber: 2.5 Consensus size: 266
310530 GAAATAAGGT
* * * * * ** * * *
310540 CGGGGTTGAAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAATCGAAGTTGGAGTAT
1 CGGGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTAT
* * * *
310605 CCCCGATTGTGAAAAATTGGT-CTTTTAGAAATAAAATCGGGGTTGGAGTATCCCTCCGAAAATA
66 CCCCGATTGCGATAAATCGATGC-TTTAGAAATAAAATCGGGGTTGGAGTATCCC-CCGAAAATA
*
310669 ACAGGATTGGAGTATCCCTGATGAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAATCAAT
129 ACAGGATTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAATCAAT
* *
310734 ACTTTTAGATATAAAGCCAGGGTTGGAGTATCTCCTCGGAAATAACAGGGTTGGAGTATCCCCGA
194 ACTTTTAGATATAAAGCCAGGGTTAGAGTATCTCCTCGGAAATAACAGGGTTGGAATATCCCCGA
310799 TGAAATAA
259 TGAAATAA
310807 CGGGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTAT
1 CGGGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTAT
*
310872 CCCTGATTGCGATAAATCGATGCTTTAGAAATAAAATCGGGGTTGGAGTATCCCCCGAAAATAAC
66 CCCCGATTGCGATAAATCGATGCTTTAGAAATAAAATCGGGGTTGGAGTATCCCCCGAAAATAAC
*
310937 -GAGATTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTACCCCTGATTATGAAAAAATCAATA
131 AG-GATTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAATCAATA
* ** *
311001 CTTTTAGATATAAAGCCGGGGTTAGAGTATCTCCTCGGAAATAATGGGGTTGTAATATCCCCGAT
195 CTTTTAGATATAAAGCCAGGGTTAGAGTATCTCCTCGGAAATAACAGGGTTGGAATATCCCCGAT
311066 GAAATAA
260 GAAATAA
* *
311073 CGGGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGAAGTAT
1 CGGGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTAT
* *
311138 CCCCGATTGC-AGTAAATCGATGCTTTAGAAATAATATCGGAGTTGGAGTATCCCC
66 CCCCGATTGCGA-TAAATCGATGCTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
311193 GATTAAGAAA
Statistics
Matches: 355, Mismatches: 28, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
265 2 0.01
266 250 0.70
267 102 0.29
268 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (266 bp):
CGGGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTAT
CCCCGATTGCGATAAATCGATGCTTTAGAAATAAAATCGGGGTTGGAGTATCCCCCGAAAATAAC
AGGATTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAATCAATAC
TTTTAGATATAAAGCCAGGGTTAGAGTATCTCCTCGGAAATAACAGGGTTGGAATATCCCCGATG
AAATAA
Found at i:311059 original size:28 final size:28
Alignment explanation
Indices: 311017--311090 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 28
311007 GATATAAAGC
* *
311017 CGGGGTTAGAGTATCTCCTCG-GAAATAA
1 CGGGGTTGGAATATCTCC-CGAGAAATAA
* *
311045 TGGGGTTGTAATATC-CCCGATGAAATAA
1 CGGGGTTGGAATATCTCCCGA-GAAATAA
*
311073 CGGGGTTGGAGTATCTCC
1 CGGGGTTGGAATATCTCC
311091 AATTGTGAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
26 2 0.06
27 2 0.06
28 30 0.83
29 2 0.06
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.27
Consensus pattern (28 bp):
CGGGGTTGGAATATCTCCCGAGAAATAA
Found at i:311220 original size:51 final size:51
Alignment explanation
Indices: 311068--311220 Score: 155
Period size: 51 Copynumber: 3.0 Consensus size: 51
311058 TCCCCGATGA
* * * * ** * *
311068 AATAACGGGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTTTGAAAAT
1 AATATCGGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT
* * * * * * *
311119 AAAATCGGAGTTGAAGTATCCCCGATTGCAG-TAAATCGATGCTTTAGAAAT
1 AATATCGGAGTTGGAGTATCCCCGATT-AAGAAAAATTGATGTTTTGGAAAT
311170 AATATCGGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT
1 AATATCGGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT
311221 GGAATCGGGA
Statistics
Matches: 79, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
50 2 0.03
51 76 0.96
52 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.31
Consensus pattern (51 bp):
AATATCGGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT
Found at i:311228 original size:51 final size:50
Alignment explanation
Indices: 311077--311243 Score: 149
Period size: 51 Copynumber: 3.3 Consensus size: 50
311067 AAATAACGGG
* * ** * *
311077 GTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT-AAATCGGA
* * * * * *
311128 GTTGAAGTATCCCCGATTGCAG-TAAATCGATGCTTTAGAAATAATATCGGA
1 GTTGGAGTATCCCCGATT-AAGAAAAATTGATGTTTTGGAAATAA-ATCGGA
*
311179 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGGAATCGG-
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT-AAATCGGA
*
311229 GATTGGAGCATCCCC
1 G-TTGGAGTATCCCC
311244 AAGATGAAAA
Statistics
Matches: 92, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
50 5 0.05
51 85 0.92
52 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAATCGGA
Found at i:313564 original size:20 final size:20
Alignment explanation
Indices: 313539--313592 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
313529 TAAATGTATC
313539 AATGTATCGATACAATG-AGA
1 AATGTATCGATACAATGCA-A
313559 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGCAA
313579 AATGTATCGATACA
1 AATGTATCGATACA
313593 TCTGGGTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Found at i:315383 original size:8 final size:8
Alignment explanation
Indices: 315366--315398 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
315356 GTATGGATTT
315366 AAAA-AAA
1 AAAAGAAA
315373 AAAAGAAA
1 AAAAGAAA
*
315381 AAAAGAAG
1 AAAAGAAA
315389 AAAAGAAA
1 AAAAGAAA
315397 AA
1 AA
315399 TTCAGATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:315747 original size:18 final size:18
Alignment explanation
Indices: 315742--315776 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
315732 AAAAAATAAA
315742 ATAAAATAAAGAAAAAAG
1 ATAAAATAAAGAAAAAAG
315760 ATAAAA-AAAGGAAAAAA
1 ATAAAATAAA-GAAAAAA
315777 TATGAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (18 bp):
ATAAAATAAAGAAAAAAG
Found at i:316688 original size:10 final size:10
Alignment explanation
Indices: 316673--316697 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
316663 AGAGGCTTAT
316673 AAAAAAAGAA
1 AAAAAAAGAA
316683 AAAAAAAGAA
1 AAAAAAAGAA
316693 AAAAA
1 AAAAA
316698 CAAAAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:317011 original size:87 final size:88
Alignment explanation
Indices: 316856--317021 Score: 210
Period size: 87 Copynumber: 1.9 Consensus size: 88
316846 GCATTGTCTC
* * * * * * **
316856 ACATACATTTGCATTTTAGATGACATTTGTATTTGCATCATTACATATGCGTTTGCCCCTTTGTT
1 ACATACATTTACATTTTAGATAACATTAGCATTTGCATCATTACATATGCATTTGCCACTTTACT
*
316921 AATGCTTGCATTTGTATCATTTT
66 AATGCATGCATTTGTATCATTTT
*
316944 ACATGCATTTACA-TTTAGATAACATTAGCATTTGCATCATTTA-ATATGCATTTGCCACTTTAC
1 ACATACATTTACATTTTAGATAACATTAGCATTTGCATCA-TTACATATGCATTTGCCACTTTAC
*
317007 TAATGCATGTATTTG
65 TAATGCATGCATTTG
317022 CATTGTTTCA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
87 52 0.79
88 14 0.21
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.44
Consensus pattern (88 bp):
ACATACATTTACATTTTAGATAACATTAGCATTTGCATCATTACATATGCATTTGCCACTTTACT
AATGCATGCATTTGTATCATTTT
Found at i:317807 original size:47 final size:47
Alignment explanation
Indices: 317754--318202 Score: 345
Period size: 47 Copynumber: 9.5 Consensus size: 47
317744 TTTGGTTAAA
*
317754 TTCTCACCTTTGTTTGATTGTATTGGCGTTAGGACCTGGTCAAACTC
1 TTCTCACCTTTGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTC
* * * *
317801 TTCTCACCTTTGTTTAACTATATTGGCATTAGGACTTGGTCAAACTC
1 TTCTCACCTTTGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTC
* * *
317848 TTC-CACCCTGGTTTGATTGTATTGGCGTTAGGACCTGGTCAAACTC
1 TTCTCACCTTTGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTC
* * * *
317894 TTCTCACCTTTGTTTAACTTTATTGGCATTAGGACCTGGTCAAACAC
1 TTCTCACCTTTGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTC
** * ** *
317941 TTCTCACCTAGGTTTGA-TAGCATTGGCGTTAAAACCTAGTCAAACTC
1 TTCTCACCTTTGTTTGACT-GTATTGGCGTTAGGACCTGGTCAAACTC
* * * * * * *
317988 TTCTTACCTTTGTTTGACTATATAGACATTAGGACCTAGTGAAACTC
1 TTCTCACCTTTGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTC
* * * * * * * * *
318035 TTTTCATCCCTCGTTTGACTATATTAGTGTTAGGGCCTGGTTAAATTC
1 TTCTCA-CCTTTGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTC
* *** * * * *
318083 TT-TATATCCTGCATTTGATTATATTAGTC-TTATGG-CCTAGTCAAACTC
1 TTCT-CA-CCTTTGTTTGACTGTATT-GGCGTTA-GGACCTGGTCAAACTC
* * *
318131 TT-TCCATCCCTTG-TTAACTGTATTGGTGTTAGGACCTGGTCAAACTC
1 TTCT-CA-CCTTTGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTC
* *
318178 TTTTCATCCCTTGTTTGACTGTATT
1 TTCTCA-CCTTTGTTTGACTGTATT
318203 CGTTACCACC
Statistics
Matches: 314, Mismatches: 77, Indels: 21
0.76 0.19 0.05
Matches are distributed among these distances:
46 43 0.14
47 189 0.60
48 80 0.25
49 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (47 bp):
TTCTCACCTTTGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTC
Found at i:317924 original size:93 final size:94
Alignment explanation
Indices: 317754--318036 Score: 399
Period size: 93 Copynumber: 3.0 Consensus size: 94
317744 TTTGGTTAAA
**
317754 TTCTCACCTTTGTTTGATTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCACCTTTGTTTAAC
1 TTCTCACCTAGGTTTGATTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCACCTTTGTTTAAC
*
317819 TATATTGGCATTAGGACTTGGTCAAACTC
66 TATATTGGCATTAGGACCTGGTCAAACTC
317848 TTC-CACCCT-GGTTTGATTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCACCTTTGTTTAA
1 TTCTCA-CCTAGGTTTGATTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCACCTTTGTTTAA
* *
317911 CTTTATTGGCATTAGGACCTGGTCAAACAC
65 CTATATTGGCATTAGGACCTGGTCAAACTC
* * ** * * *
317941 TTCTCACCTAGGTTTGATAGCATTGGCGTTAAAACCTAGTCAAACTCTTCTTACCTTTGTTTGAC
1 TTCTCACCTAGGTTTGATTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCACCTTTGTTTAAC
* * * *
318006 TATATAGACATTAGGACCTAGTGAAACTC
66 TATATTGGCATTAGGACCTGGTCAAACTC
318035 TT
1 TT
318037 TTCATCCCTC
Statistics
Matches: 169, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
93 88 0.52
94 81 0.48
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (94 bp):
TTCTCACCTAGGTTTGATTGTATTGGCGTTAGGACCTGGTCAAACTCTTCTCACCTTTGTTTAAC
TATATTGGCATTAGGACCTGGTCAAACTC
Found at i:318220 original size:47 final size:46
Alignment explanation
Indices: 318118--318231 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 46
318108 AGTCTTATGG
* * **
318118 CCTAGTCAAACTCTTTCCATCCCTTGTTAACTGTATTGGTGTTAGGA
1 CCTAGTCAAACTCTTTTCATCCCTTGTTAACTGTATT-GCGTTACCA
* *
318165 CCTGGTCAAACTCTTTTCATCCCTTGTTTGACTGTATT-CGTTACCA
1 CCTAGTCAAACTCTTTTCATCCCTTG-TTAACTGTATTGCGTTACCA
318211 CCCTAGTCAAACT-TTTCTCAT
1 -CCTAGTCAAACTCTTT-TCAT
318232 TTCGGTCTGA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
46 8 0.14
47 39 0.68
48 10 0.18
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.39
Consensus pattern (46 bp):
CCTAGTCAAACTCTTTTCATCCCTTGTTAACTGTATTGCGTTACCA
Found at i:318379 original size:44 final size:44
Alignment explanation
Indices: 318239--318395 Score: 156
Period size: 44 Copynumber: 3.6 Consensus size: 44
318229 CATTTCGGTC
* * * *
318239 TGACGTATGGTTAACACCCTAGTCAGATTTTTTTCATTTTGATT
1 TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATT
* * * * ** * *
318283 TGATGTATGGTTACAACCATGGTCA-AATCTACGTCTTTCCTG-TC
1 TGACGTATGGTTACCACCCTGGTCAGATTCT-TTTCATT-CTGATT
* *
318327 TAATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATT
1 TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATT
318371 TGACGTATGGTTACCACCCTGGTCA
1 TGACGTATGGTTACCACCCTGGTCA
318396 AACCCTTTTA
Statistics
Matches: 87, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
43 6 0.07
44 75 0.86
45 6 0.07
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (44 bp):
TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTGATT
Found at i:318404 original size:44 final size:42
Alignment explanation
Indices: 318165--318397 Score: 153
Period size: 44 Copynumber: 5.2 Consensus size: 42
318155 GGTGTTAGGA
* *
318165 CCTGGTCAAACTCTTTTCATCCCTTGTTTGACTGTATTCGTTACCAC
1 CCTGGTCAAA-TCTTTTCAT-TC-TGTTTGAC-GTA-TGGTTACCAC
* * * *
318212 CCTAGTCAAA-CTTTTCTCATTTCGGTCTGACGTATGGTTAACAC
1 CCTGGTCAAATC-TTT-TCA-TTCTGTTTGACGTATGGTTACCAC
* * * * * *
318256 CCTAGTCAGATTTTTTTCATTTTGATTTGATGTATGGTTACAAC
1 CCTGGTCA-AATCTTTTCATTCTG-TTTGACGTATGGTTACCAC
* ** * * * *
318300 CATGGTCAAATCTACGTCTTTCCTGTCTAATGTATGGTTACCAC
1 CCTGGTCAAATCT-TTTCATT-CTGTTTGACGTATGGTTACCAC
*
318344 CCTGGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCAC
1 CCTGGTCA-AATCTTTTCATTCTG-TTTGACGTATGGTTACCAC
318388 CCTGGTCAAA
1 CCTGGTCAAA
318398 CCCTTTTAAC
Statistics
Matches: 142, Mismatches: 34, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
43 10 0.07
44 95 0.67
45 14 0.10
46 9 0.06
47 13 0.09
48 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (42 bp):
CCTGGTCAAATCTTTTCATTCTGTTTGACGTATGGTTACCAC
Found at i:318539 original size:44 final size:43
Alignment explanation
Indices: 318476--318676 Score: 185
Period size: 44 Copynumber: 4.6 Consensus size: 43
318466 TTTCGATTTA
*
318476 ATGTAAGGTTACCACCCTGGTCAAATTTGCCTCTATTCTGTTTG
1 ATGTATGGTTACCACCCTGGTCAAATTT-CCTCTATTCTGTTTG
* *
318520 ATGTATGGTTACCACCCTGGTCAAACTTTTCTCAATTC-GATTTG
1 ATGTATGGTTACCACCCTGGTCAAA-TTTCCTCTATTCTG-TTTG
* * * * * *
318564 ACGTATGGTTACCACCC-GAGTTAGA-TTCTTTTCATTCCTATTTG
1 ATGTATGGTTACCACCCTG-GTCAAATTTCCTCT-ATT-CTGTTTG
* * *
318608 ATGTATGGTTACCACCTTGGTCAAATCTACCTCCT-TCCTGTTTG
1 ATGTATGGTTACCACCCTGGTCAAAT-TTCCT-CTATTCTGTTTG
*
318652 ATGTATGGTTACCACCCTGATCAAA
1 ATGTATGGTTACCACCCTGGTCAAA
318677 CTCATCTAAC
Statistics
Matches: 125, Mismatches: 22, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
42 3 0.02
43 5 0.04
44 108 0.86
45 5 0.04
46 3 0.02
47 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (43 bp):
ATGTATGGTTACCACCCTGGTCAAATTTCCTCTATTCTGTTTG
Found at i:318905 original size:42 final size:42
Alignment explanation
Indices: 318794--319794 Score: 733
Period size: 42 Copynumber: 23.7 Consensus size: 42
318784 TCTAAGTTTT
* * * * *
318794 TTACCTTTAGTCTACCTATCGGCTTTGACCTTAGAGACTTTC
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * * * * * *
318836 TTACCTTTTTAGTTTGCTTGTCGGCTTTAACTTTGGAGATTTCT
1 TTACC--TTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * *
318880 TTACCTTTAGTCTGATTGTCAGCTTTGACCTTGGAGACTTTC
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * * *
318922 TTATCTTCTTAGTCTGCTTGTCGGTTTTGACCTTAGAGACTTCG
1 TTA-CCT-TTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * * * * *
318966 TCACCTTTAGTTTGCCTATC-GACTTTGACCCTGGAGACTTCC
1 TTACCTTTAGTCTGCTTGTCAG-CTTTGACCTTAGAGACTTCC
* * * *
319008 TTACCCTTCAGTCTGCCTGACAGCTTTGACCCTAGAGACTTCC
1 TTA-CCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * *
319051 TTACCTTTAGTCTGCCTGTCAACTTTGACCTTGGAGACTTCC
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* **
319093 TTACCTTTAGTCTGCCTGTTGGCTTTGACCTT-GAAGACTTCC
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTAG-AGACTTCC
* *
319135 TTACCTTTAGTCTACTTATCAGCTTTGACAC-TAGAGACTTCC
1 TTACCTTTAGTCTGCTTGTCAGCTTTGAC-CTTAGAGACTTCC
* * * * * *
319177 TTACCCTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCA
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * * *
319219 TCACCTTTAGTCTGTTTGTCAGCTTTGACCCTAGAGACTTTC
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * ** * * *
319261 TTACCTTAAGTCT-ATCTGTTGGTTTTGACCTTGGAGATTTCC
1 TTACCTTTAGTCTGCT-TGTCAGCTTTGACCTTAGAGACTTCC
* * * * * *
319303 TCACCTTTAGTCTACTTGTCGGTTTTGACCTTAGAGATTTTC
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * * * *
319345 TTACCTTCAGTCTGCTTGTC-GACTTTGACCATGGAGACCTCT
1 TTACCTTTAGTCTGCTTGTCAG-CTTTGACCTTAGAGACTTCC
** * ** * * **
319387 TTACCCTCAAGTTTGCCAGTCAGCTTTGACCTTGGAAACTTTT
1 TTA-CCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * * * * * * * *
319430 TTACCCTTAGTCTACCTATCAGCTTTGACCCTGGGGATTTCT
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * * **
319472 TTACCCTTAGTCTGCCTATTGGCTTTGACCTTAGAGACTT-C
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* *
319513 TTCACCTTTAGTCTGCTTGTCAACTTTGACCTTAGAGACTTCT
1 TT-ACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * *
319556 TTACCCTTAGTCTGCTTGTTAGCTTTGACCCTAGAGACTTCC
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * * * * *
319598 TTACCCTTAGTTTACCTGTCAG-TTTGACCTTGGAGGCTT-C
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * * * *
319638 TTCACCTTTAGGCTGTTTGTCTGCTTTGACCCTAGAGATTTCC
1 TT-ACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* * * *
319681 TTACCTTTAGTCTGCCTATCGGCTTTGAACC-TAGAGACTTTC
1 TTACCTTTAGTCTGCTTGTCAGCTTTG-ACCTTAGAGACTTCC
* * * ** * **
319723 TTGCCTTTAGTCTGCCTATTGGCTTTGACCTTGGAGACTTTT
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
* ** *
319765 TTAGCTTTAGTCTGCCCGTCGGCTTTGACC
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACC
319795 AGAGAGAATC
Statistics
Matches: 769, Mismatches: 167, Indels: 46
0.78 0.17 0.05
Matches are distributed among these distances:
40 3 0.00
41 37 0.05
42 582 0.76
43 81 0.11
44 66 0.09
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (42 bp):
TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTAGAGACTTCC
Found at i:320345 original size:16 final size:16
Alignment explanation
Indices: 320324--320372 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
320314 GAGTTATTTT
320324 AAAAAATAAAAAAATA
1 AAAAAATAAAAAAATA
*
320340 AAAAAAT--ATAAAT-
1 AAAAAATAAAAAAATA
*
320353 AAAATATAAATAAAATA
1 AAAAAATAAA-AAAATA
320370 AAA
1 AAA
320373 TAAAAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
13 6 0.23
14 5 0.19
15 1 0.04
16 11 0.42
17 3 0.12
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAATAAAAAAATA
Found at i:320354 original size:22 final size:22
Alignment explanation
Indices: 320327--320402 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
320317 TTATTTTAAA
320327 AAATAAAAAAATAAAAAAATAT
1 AAATAAAAAAATAAAAAAATAT
*
320349 AAAT-AAAATATAAATAAAATA-
1 AAATAAAAAAATAAA-AAAATAT
* * *
320370 AAATAAAAATATAATCATAAT-T
1 AAATAAAAAAATAA-AAAAATAT
320392 AAATAAAAAAA
1 AAATAAAAAAA
320403 ATATATATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 13 0.28
22 33 0.72
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.22
Consensus pattern (22 bp):
AAATAAAAAAATAAAAAAATAT
Found at i:320356 original size:11 final size:11
Alignment explanation
Indices: 320327--320415 Score: 75
Period size: 10 Copynumber: 8.5 Consensus size: 11
320317 TTATTTTAAA
*
320327 AAATAAAAAAAT
1 AAAT-AAAATAT
320339 AAA-AAAATAT
1 AAATAAAATAT
320349 AAATAAAATAT
1 AAATAAAATAT
320360 AAATAAAATA-
1 AAATAAAATAT
320370 AAATAAAA-AT
1 AAATAAAATAT
*
320380 ATAATCATAAT-T
1 A-AAT-AAAATAT
320392 AAATAAAA-A-
1 AAATAAAATAT
*
320401 AAAT-ATATAT
1 AAATAAAATAT
320411 AAATA
1 AAATA
320416 TATATGTATA
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
8 2 0.03
9 6 0.09
10 25 0.39
11 23 0.36
12 8 0.12
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATAAAATAT
Found at i:320372 original size:27 final size:27
Alignment explanation
Indices: 320335--320419 Score: 93
Period size: 27 Copynumber: 3.0 Consensus size: 27
320325 AAAAATAAAA
320335 AAAT-AAAAAAATATAAATAAA-ATAT
1 AAATAAAAAAAATATAAATAAATATAT
*
320360 AAATAAAATAAAATAAAAATATAATCATAATT
1 AAATAAAA-AAAATATAAATA-AAT-AT-A-T
*
320392 AAATAAAAAAAATATATATAAATATAT
1 AAATAAAAAAAATATAAATAAATATAT
320419 A
1 A
320420 TGTATAATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
25 4 0.08
26 3 0.06
27 13 0.26
28 3 0.06
29 2 0.04
30 5 0.10
31 11 0.22
32 9 0.18
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (27 bp):
AAATAAAAAAAATATAAATAAATATAT
Found at i:320427 original size:37 final size:31
Alignment explanation
Indices: 320327--320439 Score: 93
Period size: 33 Copynumber: 3.4 Consensus size: 31
320317 TTATTTTAAA
* *
320327 AAATAAAAAAATAA-AAAAATATAAATAAAATAT
1 AAATAAAAAAA-AATAAAAATAT-AATCATA-AT
*
320360 AAATAAAATAAAATAAAAATATAATCATAATT
1 AAATAAAAAAAAATAAAAATATAATCATAA-T
*
320392 AAATAAAAAAAATATATATAAATATATATGTATAAT
1 AAATAAAAAAAA-ATA-A-AAATATA-AT-CATAAT
320428 ATAATAAAAAAA
1 A-AATAAAAAAA
320440 TCAAATTAAG
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
31 1 0.01
32 19 0.28
33 21 0.31
34 1 0.01
35 7 0.10
36 4 0.06
37 14 0.21
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.27
Consensus pattern (31 bp):
AAATAAAAAAAAATAAAAATATAATCATAAT
Found at i:320888 original size:27 final size:27
Alignment explanation
Indices: 320858--320911 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
320848 CAAGTAACAA
*
320858 CAGCTGCAATAAGGAGAGAAATCAATG
1 CAGCTGCAATAAGGAGAGAAACCAATG
*
320885 CAGCTGCAATGAGGAGAGAAACCAATG
1 CAGCTGCAATAAGGAGAGAAACCAATG
320912 TAGCAATAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.17, G:0.28, T:0.13
Consensus pattern (27 bp):
CAGCTGCAATAAGGAGAGAAACCAATG
Found at i:322529 original size:13 final size:13
Alignment explanation
Indices: 322511--322535 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
322501 CATAAAGTGT
322511 TGTATCGATACAA
1 TGTATCGATACAA
322524 TGTATCGATACA
1 TGTATCGATACA
322536 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:322533 original size:33 final size:33
Alignment explanation
Indices: 322491--322557 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
322481 TTCAACGATT
322491 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
322524 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
322557 T
1 T
322558 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:322595 original size:13 final size:13
Alignment explanation
Indices: 322577--322601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
322567 TGCCAAAAAA
322577 TGTATCGATACAT
1 TGTATCGATACAT
322590 TGTATCGATACA
1 TGTATCGATACA
322602 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:327355 original size:314 final size:313
Alignment explanation
Indices: 326722--328175 Score: 1131
Period size: 314 Copynumber: 4.7 Consensus size: 313
326712 TAAGTTCAAG
** * ** * * *
326722 AAAAATTATGAAAATGCCCCTAGGGG-ATATCTTCGACGTAAAAGTA-CCTGATACCCCTAAAAG
1 AAAAATTACCAAAATGCCCCTAGGGGTATACCTTTAACGTAAAAGTATCCCGACAACCCTAAAAG
* * * * * **
326785 ACTTGAAAAGGA-TTATAGATGGG-TCGAACCTATCTTAAATATCCA-CTTCGGCATAAAAGCGG
66 ACTT-AAAAAGACTCATAAAAGGGAT-GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGG
** * * *
326847 ACCCGGTG-----C-AAGGACTCAGTTCTAAAAAATTACCAAAA-AGCCCTTAGAGG--TACCTT
129 ACCCGGTGATAACCTAA-GACTTGGTTCTAAAAAATTACGAAAATA-CCTTTAGGGGTATACCTT
* * *
326903 CGATATAAAAGTATCCCGGGAACCCTAAAAGACTTAAAAAGACT-A-AAGATGGGATGAACCTAT
192 CGATGTAAAAGTATCCC-GGAACCCTAAAGGACTTAAAAAGACTCATAA-AAGGGATGAACCTAT
* ** * ** * ** *
326966 CCTAAATGCCCA-CTTTCGTCATAAAAGCGGACCTGGCAATAATGTAGGAGTTGG-TCCT
255 CCTAAATGCCCACCTTT-GGCATAAAAGCAAACCCGGTGACAACCTAGGAGTTGGTTCTT
* * *
327024 AAAAATTTACCAAAATGCCCCTAGGGGTATGCCTTTGACGTACAAGTATCCC-AGCAACCCTAAA
1 AAAAA-TTACCAAAATGCCCCTAGGGGTATACCTTTAACGTAAAAGTATCCCGA-CAACCCTAAA
* * * ** *
327088 AGA-TATAAAAAGACTCATAAAAGGGATGAATCTATCCTAAATTCCTACCTTCGATATAAAAGTG
64 AGACT-TAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCG
* * * *
327152 GACCCGGTGATGACTTAAGAGTTGGTTCTAGAAAAATTACCAAAATACCTTTAGGGGTATACCTT
128 GACCCGGTGATAACCTAAGACTTGGTTCTA-AAAAATTACGAAAATACCTTTAGGGGTATACCTT
*
327217 CGATGTAAAAGTATCCCGGCAACCCTAGAA-GACTTAAATAGACTCATAAAAGGGATGAACCTAT
192 CGATGTAAAAGTATCCCGG-AACCCTA-AAGGACTTAAAAAGACTCATAAAAGGGATGAACCTAT
* * *
327281 CCTTAATGCCTACCTTTGGCATAAAAGCAAACCCGGTGACAACCTAGGAGTT-GTTTTT
255 CCTAAATGCCCACCTTTGGCATAAAAGCAAACCCGGTGACAACCTAGGAGTTGGTTCTT
* * **** * * *
327339 TAAAATTACGAAAATGCCCCTACTAATGTA-CTTTCATA-GTAAAAGTATCTCGATAACCCTAAA
1 AAAAATTACCAAAATGCCCCTAGGGGTATACCTTT-A-ACGTAAAAGTATCCCGACAACCCTAAA
* * * * ** * * *
327402 GGACTTAAAAAGA-TTATAAATGGTGATAAAATTATCCTAAATGCCCACTTTTGGCATAAAAGCA
64 AGACTTAAAAAGACTCATAAAAGG-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCG
* * * *
327466 GACTCGGTGAAAACCTAAGACCTGGTTCTAAAAAATTACGAAAATACC-CTAGGGGT-TACCTTC
128 GACCCGGTGATAACCTAAGACTTGGTTCTAAAAAATTACGAAAATACCTTTAGGGGTATACCTTC
* * * *
327529 AATGTGAAAGTCTCCCGATAACCCTAAAGGACTTAAAAAGACTCATAAAAGGGATGAACC---CC
193 GATGTAAAAGTATCCCG-GAACCCTAAAGGACTTAAAAAGACTCATAAAAGGGATGAACCTATCC
* * *
327591 ---A-----ACCTTCGACATAAAAGCAAACCCAGTGATAACTTAGGACTTATAACCTAGGACTTG
257 TAAATGCCCACCTTTGGCATAAAAGCAAACCC-G-G------T--GAC----AACCTAGGAGTTG
327648 GTT-TT
308 GTTCTT
* * * * *
327653 GAAAAATTACGAAAATGCCCCTAGGTG-ATACCTTCAACGTGAAAGTATCCCGATAACCCT-AAA
1 -AAAAATTACCAAAATGCCCCTAGGGGTATACCTTTAACGTAAAAGTATCCCGACAACCCTAAAA
* * * * *
327716 GAACTGAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATACCCATCTTCGGCATAAAAACGA
65 G-ACTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGG
** * * * * * * * * *
327781 ACCAAGTGACAACCTAGGACTCGATTCTAAGAAATTACGAAAATGCTCGTT-GGGGTATACTTTT
129 ACCCGGTGATAACCTAAGACTTGGTTCTAAAAAATTACGAAAATAC-CTTTAGGGGTATACCTTC
* * * * *
327845 GATGTAAAAGTATACAGAGAACCCTAAATGACTTAAAAAGACCCATAAAAGGGATGAAACTATCC
193 GATGTAAAAGTATCCCG-GAACCCTAAAGGACTTAAAAAGACTCATAAAAGGGATGAACCTATCC
* ** ** ** *
327910 CAAATGCCCATTTTTGGCATAAAAGCGGACCCGGTGATGACCTAGGAGTTGGTTCTA
257 TAAATGCCCACCTTTGGCATAAAAGCAAACCCGGTGACAACCTAGGAGTTGGTTCTT
* * * * *
327967 AAAAATTACCAAAATGCCCCTAGAGGTATACCTTTAATGTAAAAGTAT-CCTAGCAAGCCTAAAG
1 AAAAATTACCAAAATGCCCCTAGGGGTATACCTTTAACGTAAAAGTATCCCGA-CAACCCTAAAA
* * *
328031 GACTTAAAAATACTCATAAAAGGGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGCGGA
65 GACTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGA
* * * * * *
328096 CCTGGTGATAACCTAAGACTTGGTTCTAAGAAATTACGAAAATGCCTCTAGGGGTAAACCTTCAA
130 CCCGGTGATAACCTAAGACTTGGTTCTAAAAAATTACGAAAATACCTTTAGGGGTATACCTTCGA
*
328161 CGTAAAAGTATCCCG
195 TGTAAAAGTATCCCG
328176 ATACTCCTAG
Statistics
Matches: 911, Mismatches: 171, Indels: 128
0.75 0.14 0.11
Matches are distributed among these distances:
300 21 0.02
301 1 0.00
302 6 0.01
303 19 0.02
304 24 0.03
305 38 0.04
306 23 0.03
308 3 0.00
310 5 0.01
311 67 0.07
312 31 0.03
313 78 0.09
314 401 0.44
315 106 0.12
316 63 0.07
317 2 0.00
319 3 0.00
322 1 0.00
325 1 0.00
326 1 0.00
327 17 0.02
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (313 bp):
AAAAATTACCAAAATGCCCCTAGGGGTATACCTTTAACGTAAAAGTATCCCGACAACCCTAAAAG
ACTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGAC
CCGGTGATAACCTAAGACTTGGTTCTAAAAAATTACGAAAATACCTTTAGGGGTATACCTTCGAT
GTAAAAGTATCCCGGAACCCTAAAGGACTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAA
TGCCCACCTTTGGCATAAAAGCAAACCCGGTGACAACCTAGGAGTTGGTTCTT
Found at i:328068 original size:628 final size:632
Alignment explanation
Indices: 327024--328178 Score: 1428
Period size: 628 Copynumber: 1.8 Consensus size: 632
327014 AGTTGGTCCT
* **
327024 AAAAATTTACCAAAATGCCCCTAGGGGTATGCCTTTGACGTACAAGTATCCCAGCAACCCTAAAA
1 AAAAATTTACCAAAATGCCCCTAGGGGTATACCTTCAACGTACAAGTATCCCAGCAACCCTAAAA
* * * * ** *
327089 GATATAAAAAGACTCATAAAAGGGATGAATCTATCCTAAATTCCTACCTTCGATATAAAAGTGGA
66 GATATAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAACGAA
** ** * * * * *
327154 CCCGGTGATGACTTAAGAGTTGGTTCTAGAAAAATTACCAAAATACCTTTAGGGGTATACCTTCG
131 CCAAGTGACAACCTAAGACTCGATTCTAGAAAAATTACCAAAATACCGTTAGGGGTATACCTTCG
* * * * * *
327219 ATGTAAAAGTATCCCGGCAACCCTAGAAGACTTAAATAGACTCATAAAAGGGATGAACCTATCCT
196 ATGTAAAAGTATACAGGCAACCCTAGAAGACTTAAAAAGACCCATAAAAGGGATGAAACTATCCC
* * * ** *
327284 TAATGCCTACCTTTGGCATAAAAGCAAACCCGGTGACAACCTAGGAGTTGTTTTTTAAAATTACG
261 AAATGCCCACCTTTGGCATAAAAGCAAACCCGGTGACAACCTAGGAGTTGTTCTAAAAAATTACC
* * * * *
327349 AAAATGCCCCTACTAATGTACTTTCATAGTAAAAGTATCTCGATAACCCTAAAGGACTTAAAAAG
326 AAAATGCCCCTACGAATATACTTTAATAGTAAAAGTATCTAGACAACCCTAAAGGACTTAAAAAG
* * *
327414 ATTATAAATGGTGATAAAATTATCCTAAATGCCCA-CTTTTGGCATAAAAGCAGA-CTCGGTGAA
391 ATCATAAAAGGTGATAAAACTATCCTAAATGCCCATC-TTTGGCATAAAAGCAGACCT-GGTGAA
* * *
327477 AACCTAAGACCTGGTTCTAAAAAATTACGAAAATACC-CTAGGGGT-TACCTTCAATGTGAAAGT
454 AACCTAAGACCTGGTTCTAAAAAATTACGAAAATACCTCTAGGGGTAAACCTTCAACGTAAAAGT
*
327540 CTCCCGATAACCCTAAAGGACTTAAAAAGACTCATAAAAGGGATGAACCCCAACCTTCGACATAA
519 ATCCCGATAACCCTAAAGGACTTAAAAAGACTCATAAAAGGGATGAACCCCAACCTTCGACATAA
327605 AAGCAAACCCAGTGATAACTTAGGACTTATAACCTAGGACTTGGTTTTG
584 AAGCAAACCCAGTGATAACTTAGGACTTATAACCTAGGACTTGGTTTTG
* * *
327654 AAAAA-TTACGAAAATGCCCCTAGGTG-ATACCTTCAACGTGA-AAGTATCCC-GATAACCCT-A
1 AAAAATTTACCAAAATGCCCCTAGGGGTATACCTTCAACGT-ACAAGTATCCCAG-CAACCCTAA
* *
327714 AAGA-ACTGAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATACCCATCTTCGGCATAAAAA
64 AAGATA-T-AAAAAGACTCATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAA
* * * *
327778 CGAACCAAGTGACAACCTAGGACTCGATTCTA-AGAAATTACGAAAATGCTCGTT-GGGGTATAC
127 CGAACCAAGTGACAACCTAAGACTCGATTCTAGAAAAATTACCAAAATAC-CGTTAGGGGTATAC
* *
327841 TTTTGATGTAAAAGTATACAGAG-AACCCTA-AATGACTTAAAAAGACCCATAAAAGGGATGAAA
191 CTTCGATGTAAAAGTATACAG-GCAACCCTAGAA-GACTTAAAAAGACCCATAAAAGGGATGAAA
** ** **
327904 CTATCCCAAATGCCCATTTTTGGCATAAAAGCGGACCCGGTGATGACCTAGGAGTTGGTTCTAAA
254 CTATCCCAAATGCCCACCTTTGGCATAAAAGCAAACCCGGTGACAACCTAGGAGTT-GTTCTAAA
* *
327969 AAATTACCAAAATGCCCCTA-GAGGTATACCTTTAAT-GTAAAAGTATCCTAG-CAAGCCTAAAG
318 AAATTACCAAAATGCCCCTACGA-ATATA-CTTTAATAGTAAAAGTAT-CTAGACAACCCTAAAG
* * * *
328031 GACTTAAAAATACTCATAAAAGG-GATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGCGG
380 GACTTAAAAAGA-TCATAAAAGGTGATAAAACTATCCTAAATGCCCATCTTTGGCATAAAAGCAG
* * * *
328095 ACCTGGTGATAACCTAAGACTTGGTTCTAAGAAATTACGAAAATGCCTCTAGGGGTAAACCTTCA
444 ACCTGGTGAAAACCTAAGACCTGGTTCTAAAAAATTACGAAAATACCTCTAGGGGTAAACCTTCA
328160 ACGTAAAAGTATCCCGATA
509 ACGTAAAAGTATCCCGATA
328179 CTCCTAGTGA
Statistics
Matches: 439, Mismatches: 70, Indels: 32
0.81 0.13 0.06
Matches are distributed among these distances:
626 3 0.01
627 129 0.29
628 231 0.53
629 48 0.11
630 28 0.06
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (632 bp):
AAAAATTTACCAAAATGCCCCTAGGGGTATACCTTCAACGTACAAGTATCCCAGCAACCCTAAAA
GATATAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAACGAA
CCAAGTGACAACCTAAGACTCGATTCTAGAAAAATTACCAAAATACCGTTAGGGGTATACCTTCG
ATGTAAAAGTATACAGGCAACCCTAGAAGACTTAAAAAGACCCATAAAAGGGATGAAACTATCCC
AAATGCCCACCTTTGGCATAAAAGCAAACCCGGTGACAACCTAGGAGTTGTTCTAAAAAATTACC
AAAATGCCCCTACGAATATACTTTAATAGTAAAAGTATCTAGACAACCCTAAAGGACTTAAAAAG
ATCATAAAAGGTGATAAAACTATCCTAAATGCCCATCTTTGGCATAAAAGCAGACCTGGTGAAAA
CCTAAGACCTGGTTCTAAAAAATTACGAAAATACCTCTAGGGGTAAACCTTCAACGTAAAAGTAT
CCCGATAACCCTAAAGGACTTAAAAAGACTCATAAAAGGGATGAACCCCAACCTTCGACATAAAA
GCAAACCCAGTGATAACTTAGGACTTATAACCTAGGACTTGGTTTTG
Found at i:328171 original size:471 final size:464
Alignment explanation
Indices: 326722--328178 Score: 1265
Period size: 471 Copynumber: 3.1 Consensus size: 464
326712 TAAGTTCAAG
* * * * * * *
326722 AAAAATTATGAAAATGCCCCTAGGGG-ATATCTTCGACGTAAAAGTA-CCTGATACCCCTAAAAG
1 AAAAATTACGAAAATGCCTCTAGGGGTATACCTTCAACGTAAAAGTATCCCGATAACCCTAGAAG
* * * * * * * **
326785 ACTTGAAAAGGA-TTATAGATGGG-TCGAACCTATCTTAAATATCCA-CTTCGGCATAAAAGCGG
66 AC-TGAAAAAGACTCATAAAAGGGAT-GAACCTATCCTAAATACCCACCTTCGGCATAAAAACAA
** * * * ** *
326847 ACCCGGTG-C-A---AGGACTC-AGTTCTAAAAAATTACCAAAAAGCCCTTA-G-AGGTACCTTC
129 ACCAAGTGACAACCTAGGACTCGA-TTCT-AAAAATTACGAAAATGCCCCTACGAATATACTTTC
* *
326904 GATA-TAAAAGTATCCCGGGAACCCTAAAAGACTTAAAAAGAC-TAAAGATGGGATGAACCTATC
192 -ATAGTAAAAGTAT-CCGAGAACCCTAAAAGACTTAAAAAGACATAAA-A-GGGATGAAACTATC
* * * ** ** * *
326967 CTAAATGCCCACTTTCGTCATAAAAGCGGACCTGGCAATAATGTAGGAGTTGGTCCTAAAAATTT
253 CTAAATGCCCACTTTTGGCATAAAAGCGGACCCGGTGATAACCTAGGAGTTGGTTCTAAAAAATT
* * * * *
327032 ACCAAAATGCCCCTAGGGGTATGCCTTTGACGTACAAGTATCCCAGCAACCCTAAAAGA-TATAA
318 ACCAAAATGCCCCTAGGGGTATACCTTTAATGTAAAAGTAT-CCAGCAACCCTAAAGGACT-TAA
* * * * * * * *
327096 AAAGACTCATAAAAGGGATGAATCTATCCTAAATTCCTACCTTCGATATAAAAGTGGACCCGGTG
381 AAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCAAACTTAG-GATAAAAGAGGACCTGGTG
* * *
327161 ATGACTTAAGAGTTGGTTCT
445 ATAACCTAAGACTTGGTTCT
* * * * * **
327181 AGAAAAATTACCAAAATACCTTTAGGGGTATACCTTCGATGTAAAAGTATCCCGGCAACCCTAGA
1 --AAAAATTACGAAAATGCCTCTAGGGGTATACCTTCAACGTAAAAGTATCCCGATAACCCTAGA
* * * * * * *
327246 AGACTTAAATAGACTCATAAAAGGGATGAACCTATCCTTAATGCCTACCTTTGGCATAAAAGCAA
64 AGACTGAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAACAA
** * * * * * * *
327311 ACCCGGTGACAACCTAGGAGTTGTTTTTTAAAATTACGAAAATGCCCCTACTAATGTACTTTCAT
129 ACCAAGTGACAACCTAGGACTCGATTCTAAAAATTACGAAAATGCCCCTACGAATATACTTTCAT
* * * * * *
327376 AGTAAAAGTATCTCGATAACCCTAAAGGACTTAAAAAGATTATAAATGGTGATAAAATTATCCTA
194 AGTAAAAGTATC-CGAGAACCCTAAAAGACTTAAAAAGA-CATAAAAGG-GATGAAACTATCCTA
* * * * ** *
327441 AATGCCCACTTTTGGCATAAAAGCAGACTCGGTGAAAACCTAAGACCTGGTTCTAAAAAATTACG
256 AATGCCCACTTTTGGCATAAAAGCGGACCCGGTGATAACCTAGGAGTTGGTTCTAAAAAATTACC
* * * * * *
327506 AAAAT-ACCCTAGGGGT-TACCTTCAATGTGAAAGTCTCCCGATAACCCTAAAGGACTTAAAAAG
321 AAAATGCCCCTAGGGGTATACCTTTAATGTAAAAGTATCCAG-CAACCCTAAAGGACTTAAAAAG
* * ** ***
327569 ACTCATAAAAGGGATGAACCCCAACCTTCGACATAAAAG-CAAACCCAGTGATAACTTAGGA-CT
385 ACTCATAAAAGGGATGAA--CCTA---TC--C-TAAATGCCAAACTTAG-GATAAAAGAGGACCT
* *
327632 --T-ATAACCTAGGACTTGGTTTT
441 GGTGATAACCTAAGACTTGGTTCT
* * *
327653 GAAAAATTACGAAAATGCCCCTAGGTG-ATACCTTCAACGTGAAAGTATCCCGATAACCCTA-AA
1 -AAAAATTACGAAAATGCCTCTAGGGGTATACCTTCAACGTAAAAGTATCCCGATAACCCTAGAA
* *
327716 GAACTGAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATACCCATCTTCGGCATAAAAACGA
65 G-ACTGAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAACAA
* * ** ** *
327781 ACCAAGTGACAACCTAGGACTCGATTCTAAGAAATTACGAAAATGCTCGTTGGGGTATACTTTTG
129 ACCAAGTGACAACCTAGGACTCGATTCTAA-AAATTACGAAAATGCCCCTACGAATATAC-TTTC
* *
327846 AT-GTAAAAGTATACAGAGAACCCTAAATGACTTAAAAAGACCCATAAAAGGGATGAAACTATCC
192 ATAGTAAAAGTAT-CCGAGAACCCTAAAAGACTTAAAAAGA--CATAAAAGGGATGAAACTATCC
* * *
327910 CAAATGCCCATTTTTGGCATAAAAGCGGACCCGGTGATGACCTAGGAGTTGGTTCTAAAAAATTA
254 TAAATGCCCACTTTTGGCATAAAAGCGGACCCGGTGATAACCTAGGAGTTGGTTCTAAAAAATTA
* *
327975 CCAAAATGCCCCTAGAGGTATACCTTTAATGTAAAAGTATCCTAGCAAGCCTAAAGGACTTAAAA
319 CCAAAATGCCCCTAGGGGTATACCTTTAATGTAAAAGTATCC-AGCAACCCTAAAGGACTTAAAA
* * * * *
328040 ATACTCATAAAAGGGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGCGGACCTGGTGAT
383 AGACTCATAAAAGGGATGAACCTATCCTAAATGCCAAACTTAGG-ATAAAAGAGGACCTGGTGAT
328105 AACCTAAGACTTGGTTCT
447 AACCTAAGACTTGGTTCT
*
328123 AAGAAATTACGAAAATGCCTCTAGGGGTAAACCTTCAACGTAAAAGTATCCCGATA
1 AA-AAATTACGAAAATGCCTCTAGGGGTATACCTTCAACGTAAAAGTATCCCGATA
328179 CTCCTAGTGA
Statistics
Matches: 780, Mismatches: 172, Indels: 78
0.76 0.17 0.08
Matches are distributed among these distances:
461 21 0.03
462 24 0.03
463 37 0.05
464 23 0.03
465 7 0.01
466 13 0.02
467 2 0.00
468 23 0.03
469 67 0.09
470 199 0.26
471 246 0.32
472 41 0.05
473 57 0.07
474 3 0.00
475 1 0.00
476 12 0.02
477 4 0.01
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (464 bp):
AAAAATTACGAAAATGCCTCTAGGGGTATACCTTCAACGTAAAAGTATCCCGATAACCCTAGAAG
ACTGAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAACAAAC
CAAGTGACAACCTAGGACTCGATTCTAAAAATTACGAAAATGCCCCTACGAATATACTTTCATAG
TAAAAGTATCCGAGAACCCTAAAAGACTTAAAAAGACATAAAAGGGATGAAACTATCCTAAATGC
CCACTTTTGGCATAAAAGCGGACCCGGTGATAACCTAGGAGTTGGTTCTAAAAAATTACCAAAAT
GCCCCTAGGGGTATACCTTTAATGTAAAAGTATCCAGCAACCCTAAAGGACTTAAAAAGACTCAT
AAAAGGGATGAACCTATCCTAAATGCCAAACTTAGGATAAAAGAGGACCTGGTGATAACCTAAGA
CTTGGTTCT
Found at i:328196 original size:157 final size:154
Alignment explanation
Indices: 326722--328184 Score: 958
Period size: 157 Copynumber: 9.4 Consensus size: 154
326712 TAAGTTCAAG
* * * * * *
326722 AAAAATTATGAAAATGCCCCTAGGGG-ATATCTTCGACGTAAAAGTA-CCTGATACCCCTAAAAG
1 AAAAATTACGAAAATGCCCCTAGGGGTATACCTTCAATGTAAAAGTATCCCGATA-CCCT-AAGG
* * * * * ** *
326785 ACTTGAAAAGGA-TTATAGATGGG-TCGAACCTATCTTAAATATCCA-CTTCGGCATAAAAGCGG
64 ACTT-AAAAAGACTCATAAAAGGGAT-GAACCTATCCTAAATGCCCATCTTTGGCATAAAAGCGG
* * **
326847 ACCCGGTG-----CAAGGACTCAGTTCT
127 ACCTGGTGATAACCTAGGACTTGGTTCT
* * * * * *
326870 AAAAAATTACCAAAAAGCCCTTAGAGG--TACCTTCGATATAAAAGTATCCCGGGA-ACCCTAAA
1 -AAAAATTACGAAAATGCCCCTAGGGGTATACCTTCAATGTAAAAGTATCCC--GATACCCT-AA
* * *
326932 AGACTTAAAAAGACT-A-AAGATGGGATGAACCTATCCTAAATGCCCA-CTTTCGTCATAAAAGC
62 GGACTTAAAAAGACTCATAA-AAGGGATGAACCTATCCTAAATGCCCATCTTT-GGCATAAAAGC
** ** * *
326994 GGACCTGGCAATAATGTAGGAGTTGGTCCT
125 GGACCTGGTGATAACCTAGGACTTGGTTCT
* * ** * *
327024 AAAAATTTACCAAAATGCCCCTAGGGGTATGCCTTTGACGTACAAGTATCCCAGCA-ACCCTAAA
1 AAAAA-TTACGAAAATGCCCCTAGGGGTATACCTTCAATGTAAAAGTATCCC-G-ATACCCT-AA
* * * * * * ** *
327088 AGA-TATAAAAAGACTCATAAAAGGGATGAATCTATCCTAAATTCCTACCTTCGATATAAAAGTG
62 GGACT-TAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGCG
* * * * *
327152 GACCCGGTGATGACTTAAGAGTTGGTTCT
126 GACCTGGTGATAACCTAGGACTTGGTTCT
* * ** *
327181 AGAAAAATTACCAAAATACCTTTAGGGGTATACCTTCGATGTAAAAGTATCCCGGCA-ACCCTAG
1 --AAAAATTACGAAAATGCCCCTAGGGGTATACCTTCAATGTAAAAGTATCCC-G-ATACCCTA-
* * * * * *
327245 AAGACTTAAATAGACTCATAAAAGGGATGAACCTATCCTTAATGCCTACCTTTGGCATAAAAGCA
61 AGGACTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGCG
* * * * * *
327310 AACCCGGTGACAACCTAGGAGTTGTTTTT
126 GACCTGGTGATAACCTAGGACTTGGTTCT
* **** * * *
327339 TAAAATTACGAAAATGCCCCTACTAATGTACTTTC-ATAGTAAAAGTATCTCGATAACCCTAAAG
1 AAAAATTACGAAAATGCCCCTAGGGGTATACCTTCAAT-GTAAAAGTATCCCGAT-ACCCT-AAG
* * * ** *
327403 GACTTAAAAAGA-TTATAAATGGTGATAAAATTATCCTAAATGCCCA-CTTTTGGCATAAAAGCA
63 GACTTAAAAAGACTCATAAAAGG-GATGAACCTATCCTAAATGCCCATC-TTTGGCATAAAAGCG
* * *
327466 GA-CTCGGTGAAAACCTAAGACCTGGTTCT
126 GACCT-GGTGATAACCTAGGACTTGGTTCT
* * *
327495 AAAAAATTACGAAAAT-ACCCTAGGGGT-TACCTTCAATGTGAAAGTCTCCCGATAACCCTAAAG
1 -AAAAATTACGAAAATGCCCCTAGGGGTATACCTTCAATGTAAAAGTATCCCGAT-ACCCT-AAG
* * * * ***
327558 GACTTAAAAAGACTCATAAAAGGGATGAACCCCAACCTTCGACATAAAAG-CAAACCCAGTG-AT
63 GACTTAAAAAGACTCATAAAAGGGATGAA--CCTA---TC--C-TAAATGCCCATCTTTG-GCAT
**** *
327621 AACTTAGGA-CT--T-ATAACCTAGGACTTGGTTTT
119 AAAAGCGGACCTGGTGATAACCTAGGACTTGGTTCT
* * *
327653 GAAAAATTACGAAAATGCCCCTAGGTG-ATACCTTCAACGTGAAAGTATCCCGATAACCCTAAAG
1 -AAAAATTACGAAAATGCCCCTAGGGGTATACCTTCAATGTAAAAGTATCCCGAT-ACCCT-AAG
* * * * * *
327717 AACTGAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATACCCATCTTCGGCATAAAAACGAA
63 GACTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGCGGA
** * * *
327782 CCAAGTGACAACCTAGGACTCGATTCT
128 CCTGGTGATAACCTAGGACTTGGTTCT
* * * * ** * * * *
327809 AAGAAATTACGAAAATGCTCGTTGGGGTATACTTTTGATGTAAAAGTATACAGAGAACCCTAAAT
1 AA-AAATTACGAAAATGCCCCTAGGGGTATACCTTCAATGTAAAAGTATCCCGA-TACCCT-AAG
* * * *
327874 GACTTAAAAAGACCCATAAAAGGGATGAAACTATCCCAAATGCCCATTTTTGGCATAAAAGCGGA
63 GACTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGCGGA
* * *
327939 CCCGGTGATGACCTAGGAGTTGGTTCT
128 CCTGGTGATAACCTAGGACTTGGTTCT
* * * * *
327966 AAAAAATTACCAAAATGCCCCTAGAGGTATACCTTTAATGTAAAAGTATCCTAGCA-AGCCTAAA
1 -AAAAATTACGAAAATGCCCCTAGGGGTATACCTTCAATGTAAAAGTATCC-CG-ATACCCT-AA
*
328030 GGACTTAAAAATACTCATAAAAGGGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGCGG
62 GGACTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGCGG
*
328095 ACCTGGTGATAACCTAAGACTTGGTTCT
127 ACCTGGTGATAACCTAGGACTTGGTTCT
* * *
328123 AAGAAATTACGAAAATGCCTCTAGGGGTAAACCTTCAACGTAAAAGTATCCCGATACTCCTA
1 AA-AAATTACGAAAATGCCCCTAGGGGTATACCTTCAATGTAAAAGTATCCCGATAC-CCTA
328185 GTGACACTAA
Statistics
Matches: 1038, Mismatches: 215, Indels: 115
0.76 0.16 0.08
Matches are distributed among these distances:
147 1 0.00
148 48 0.05
149 55 0.05
150 1 0.00
151 7 0.01
152 11 0.01
153 6 0.01
154 30 0.03
155 65 0.06
156 202 0.19
157 351 0.34
158 163 0.16
159 77 0.07
160 2 0.00
162 12 0.01
163 7 0.01
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (154 bp):
AAAAATTACGAAAATGCCCCTAGGGGTATACCTTCAATGTAAAAGTATCCCGATACCCTAAGGAC
TTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGCGGACCT
GGTGATAACCTAGGACTTGGTTCT
Found at i:328592 original size:170 final size:167
Alignment explanation
Indices: 328313--328720 Score: 606
Period size: 170 Copynumber: 2.4 Consensus size: 167
328303 GTAAACCAAA
* * * * * * *
328313 GGATACGAAAAGTTTT-GAAACTTCTCATACCCCTATGGAAAACCATAGGAATAATAGAAATCTT
1 GGATACGAAAAGTTTTAAAAATTTCT-ATACCCCTACGAAAAACTATAGGAATATTAGAAATCTA
328377 GAAAAATGATTAAATTTATTTTAAAATGGTTGAAATGATTTCATTTCAATTATTATTTATTTAAT
65 GAAAAATGATTAAATTTATTTTAAAATGGTTGAAATGATTTCATTTCAATTATTATTTATTTAAT
* *
328442 TCTAAAAAAAATCATTTTGTTC-CAGACAAAAAATCAAG
130 TCTAAAAAAAATCATTTCGTACTC-GACAAAAAATCAAG
* *
328480 GGATACGAAAAGTTTTAAAAATTTCTATACCCTTACGAAAAACTATAGGAATATTGGAAATCTAG
1 GGATACGAAAAGTTTTAAAAATTTCTATACCCCTACGAAAAACTATAGGAATATTAGAAATCTAG
* *
328545 AAAAAAAATGATTAATTTTATTTTAAAATGGTTGAAATGATTTCATTTTAATTATTATTTATTTA
66 ---AAAAATGATTAAATTTATTTTAAAATGGTTGAAATGATTTCATTTCAATTATTATTTATTTA
*
328610 ATTCTAAAAAAAATCATTTCGTACTCGACGAAAAATCAAG
128 ATTCTAAAAAAAATCATTTCGTACTCGACAAAAAATCAAG
*
328650 GGATACGAAAAGTTTTAAAAATTTTTATACCCCTACGAAAAACTATAGGAATATTAGAAATCTTA
1 GGATACGAAAAGTTTTAAAAATTTCTATACCCCTACGAAAAACTATAGGAATATTAGAAATC-TA
328715 -AAAAAT
65 GAAAAAT
328721 TAAGATAGTA
Statistics
Matches: 218, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
167 54 0.25
168 7 0.03
170 154 0.71
171 3 0.01
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (167 bp):
GGATACGAAAAGTTTTAAAAATTTCTATACCCCTACGAAAAACTATAGGAATATTAGAAATCTAG
AAAAATGATTAAATTTATTTTAAAATGGTTGAAATGATTTCATTTCAATTATTATTTATTTAATT
CTAAAAAAAATCATTTCGTACTCGACAAAAAATCAAG
Found at i:345569 original size:19 final size:20
Alignment explanation
Indices: 345526--345578 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
345516 ATTTCAACGA
345526 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
*
345546 ATTGTATCGATACAT-AAGT
1 TTTGTATCGATACATAAAGT
345565 TTTGTATCGATACA
1 TTTGTATCGATACA
345579 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:345639 original size:13 final size:13
Alignment explanation
Indices: 345621--345659 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
345611 ATTACGCAAA
345621 TGTATCGATACAT
1 TGTATCGATACAT
*
345634 TGTATCGATACAC
1 TGTATCGATACAT
345647 TGTATCGATACAT
1 TGTATCGATACAT
345660 ACAGGTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:349832 original size:13 final size:13
Alignment explanation
Indices: 349814--349838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
349804 AATTTTTTGG
349814 TGTATCGATACAT
1 TGTATCGATACAT
349827 TGTATCGATACA
1 TGTATCGATACA
349839 AGTTTGGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:352408 original size:13 final size:13
Alignment explanation
Indices: 352390--352428 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
352380 ATAATCCCCC
*
352390 TGTATCGATACAG
1 TGTATCGATACAA
352403 TGTATCGATACAA
1 TGTATCGATACAA
352416 TGTATCGATACAA
1 TGTATCGATACAA
352429 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:355178 original size:28 final size:28
Alignment explanation
Indices: 355097--355178 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
355087 TTTTGGAGAT
355097 AATAACGGGGTTGGAGTGTTCCCTCG--GA
1 AATAACGGGGTTGGAGTG-T-CCTCGATGA
* * *
355125 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTGTCCTCGATGA
*
355153 AATAACGAGGTTGGAGTGTCCTCGAT
1 AATAACGGGGTTGGAGTGTCCTCGAT
355179 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTGTCCTCGATGA
Found at i:355231 original size:52 final size:50
Alignment explanation
Indices: 355161--355497 Score: 193
Period size: 51 Copynumber: 6.4 Consensus size: 50
355151 GAAATAACGA
* * *
355161 GGTTGGAGTGTCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAATCG
* * * * *
355212 GTGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 G-GTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAATC-G
*** *
355265 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCG
**** * *
355315 AGGTTGGAGTATCCCC--TTA-GAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 -GGTTGGAGTATCCCCGATTATGAAA-AA-----TT-G-GTATTTTGGA-AATAAAATC-G
* * *
355371 GGTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTATGAA-AAATT-G-GTATTTTGGAAATAAAATCG
** *
355424 GAGTTGGAGTATCCCCGATTAT-AGAAAATTAATGTTTT-GAAAGTAAAATCG
1 G-GTTGGAGTATCCCCGATTATGA-AAAATTGGTATTTTGGAAA-TAAAATCG
* *
355475 GAGTTGGAATATCCTCGATTATG
1 G-GTTGGAGTATCCCCGATTATG
355498 GAGAATTGAG
Statistics
Matches: 218, Mismatches: 44, Indels: 47
0.71 0.14 0.15
Matches are distributed among these distances:
48 4 0.02
49 5 0.02
50 5 0.02
51 70 0.32
52 50 0.23
53 31 0.14
54 21 0.10
55 15 0.07
56 7 0.03
57 4 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCG
Found at i:355320 original size:51 final size:51
Alignment explanation
Indices: 355158--355330 Score: 195
Period size: 52 Copynumber: 3.4 Consensus size: 51
355148 GATGAAATAA
* * *
355158 CGAGGTTGGAGTGTCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAAT
* * * * *
355210 CG-GTGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
1 CGAG-GTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAAT
* *** *
355262 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
355313 CGAGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
355331 TTAGAAATAA
Statistics
Matches: 100, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
51 38 0.38
52 51 0.51
53 11 0.11
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
Found at i:355376 original size:27 final size:29
Alignment explanation
Indices: 355316--355388 Score: 98
Period size: 27 Copynumber: 2.6 Consensus size: 29
355306 ATAAAGTCGA
*
355316 GGTTGGAGTATCCCC-TTAGAAATAACGG
1 GGTTGGAGTATCCCCGATAGAAATAACGG
*
355344 GGTTGGAGTATCCCCGAT-G-ATTAACGG
1 GGTTGGAGTATCCCCGATAGAAATAACGG
*
355371 GGTTGGAGTGTCCCCGAT
1 GGTTGGAGTATCCCCGAT
355389 TGTGAAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 24 0.59
28 16 0.39
29 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (29 bp):
GGTTGGAGTATCCCCGATAGAAATAACGG
Found at i:357867 original size:13 final size:13
Alignment explanation
Indices: 357849--357907 Score: 60
Period size: 13 Copynumber: 5.0 Consensus size: 13
357839 ACAAAGATCC
357849 ATGTATCGATACA
1 ATGTATCGATACA
357862 ATGTATCGATACA
1 ATGTATCGATACA
357875 CA-G-A---A-A-A
1 -ATGTATCGATACA
357882 ATGTATCGATACA
1 ATGTATCGATACA
357895 ATGTATCGATACA
1 ATGTATCGATACA
357908 CAGAAACATT
Statistics
Matches: 38, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
6 1 0.03
7 2 0.05
8 2 0.05
9 1 0.03
11 1 0.03
12 2 0.05
13 28 0.74
14 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:357870 original size:33 final size:33
Alignment explanation
Indices: 357828--357913 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
357818 AAAATTTCCA
***
357828 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
357861 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
357894 AATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
357914 CATTTCCTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.24
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:357959 original size:19 final size:18
Alignment explanation
Indices: 357935--358002 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
357925 CAGTAGCTAA
357935 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
357954 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
357969 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
357986 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
358003 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:357975 original size:13 final size:13
Alignment explanation
Indices: 357957--357981 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
357947 ACAATACTTA
357957 TGTATCGATACAT
1 TGTATCGATACAT
357970 TGTATCGATACA
1 TGTATCGATACA
357982 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:357979 original size:32 final size:32
Alignment explanation
Indices: 357938--358000 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
357928 TAGCTAATTA
*
357938 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
357970 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
358001 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:361135 original size:12 final size:12
Alignment explanation
Indices: 361120--361150 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
361110 TCCGAGTCAC
361120 CATCTTCATCAT
1 CATCTTCATCAT
361132 CATCTTCATCAT
1 CATCTTCATCAT
*
361144 CTTCTTC
1 CATCTTC
361151 GTCCTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.45
Consensus pattern (12 bp):
CATCTTCATCAT
Found at i:362786 original size:13 final size:13
Alignment explanation
Indices: 362768--362793 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
362758 AATTTTTTGG
362768 TGTATCGATACAT
1 TGTATCGATACAT
362781 TGTATCGATACAT
1 TGTATCGATACAT
362794 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:373694 original size:8 final size:8
Alignment explanation
Indices: 373683--373745 Score: 63
Period size: 8 Copynumber: 7.6 Consensus size: 8
373673 AAAAGAAGAA
373683 AAAAAAAC
1 AAAAAAAC
*
373691 AAAAAACC
1 AAAAAAAC
*
373699 AAAAAAAG
1 AAAAAAAC
*
373707 AAAAAAAG
1 AAAAAAAC
*
373715 AAAAAAAA
1 AAAAAAAC
373723 AACAAAAAC
1 AA-AAAAAC
*
373732 AACAATAAC
1 AA-AAAAAC
373741 AAAAA
1 AAAAA
373746 GGGTCCGGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
8 32 0.68
9 15 0.32
ACGTcount: A:0.84, C:0.11, G:0.03, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:373694 original size:9 final size:9
Alignment explanation
Indices: 373682--373736 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
373672 AAAAAGAAGA
373682 AAAAAAAAC
1 AAAAAAAAC
*
373691 -AAAAAACC
1 AAAAAAAAC
373699 AAAAAAAGA-
1 AAAAAAA-AC
373708 AAAAAAGAA-
1 AAAAAA-AAC
373717 AAAAAAAAC
1 AAAAAAAAC
*
373726 AAAAACAAC
1 AAAAAAAAC
373735 AA
1 AA
373737 TAACAAAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 9 0.23
9 29 0.74
10 1 0.03
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:373745 original size:1 final size:1
Alignment explanation
Indices: 373669--373730 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
373659 CATCCTCCAC
* * * ** * * *
373669 AAAAAAAAGAAGAAAAAAAAACAAAAAACCAAAAAAAGAAAAAAAGAAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
373731 CAACAATAAC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:375223 original size:29 final size:29
Alignment explanation
Indices: 375185--375680 Score: 677
Period size: 29 Copynumber: 16.9 Consensus size: 29
375175 TCACCCTTCA
* *
375185 AAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
375214 AAAGCCCACAAGTTAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
375243 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* *
375273 AAAGCTCACAAGTTAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
375302 AGAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
*
375332 AAAGCTCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
375361 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* * *
375391 AAAGCCCACAAGTTAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
375420 AAAGCCCACAAGTCAATGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
*
375450 AAAGCCCACAAGTTAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
375479 AAAGCCCACAAGTCAATGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
375508 AAAGCCCACAAGTTAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
375537 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* *
375567 AAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
375596 AAAGCCCACAAGTTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* ** * *
375626 AAAGCCCACAAGTCAATGTTATCTCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
375655 AAAGCCCACAAGTCAGTGGCAACTTT
1 AAAGCCCACAAGTCAGTGGCATCTTT
375681 CAGAAGCACA
Statistics
Matches: 407, Mismatches: 54, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
29 254 0.62
30 153 0.38
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCC
Found at i:375286 original size:59 final size:59
Alignment explanation
Indices: 375185--375675 Score: 770
Period size: 59 Copynumber: 8.4 Consensus size: 59
375175 TCACCCTTCA
* * *
375185 AAAGCCCACAAGTCAGTGGTA-TCTTTTCAAAAGCCCACAAGTTAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCC
*
375243 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCTCACAAGTTAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCC
* * *
375302 AGAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCTCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCC
* *
375361 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCC
*
375420 AAAGCCCACAAGTCAATGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCC
* *
375479 AAAGCCCACAAGTCAATGGCA-TCTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCC
* * *
375537 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCC
* * * ** * *
375596 AAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAATGTTATCTCTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCC
375655 AAAGCCCACAAGTCAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
375676 ACTTTCAGAA
Statistics
Matches: 406, Mismatches: 25, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
58 76 0.19
59 330 0.81
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (59 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCC
Found at i:375716 original size:29 final size:27
Alignment explanation
Indices: 375651--375731 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 27
375641 ATGTTATCTC
* **
375651 TTCAAAAGCCCACAAGTCAGTGGCAACT
1 TTCAAAAGCACACAAGTTGGT-GCAACT
*
375679 TTCAGAAGCACACAAGTTGGTGCAACCCT
1 TTCAAAAGCACACAAGTTGGTGCAA--CT
*
375708 TTCAAAAGCCCACATAAGTTGGTG
1 TTCAAAAG--CACACAAGTTGGTG
375732 GCATCTTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 4 0.09
28 17 0.40
29 9 0.21
31 13 0.30
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (27 bp):
TTCAAAAGCACACAAGTTGGTGCAACT
Found at i:375805 original size:43 final size:43
Alignment explanation
Indices: 375742--376156 Score: 461
Period size: 43 Copynumber: 9.1 Consensus size: 43
375732 GCATCTTTGT
* * *
375742 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
375785 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C
* *
375829 TTTTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCAC
1 -----CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
*
375877 CTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCATATTCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG------CAC
* *
375926 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATAATGGCATCTTCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG------CAC
* *
375975 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGTACATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
*
376018 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATATTC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC--A--C
* * * *
376065 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCAC
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* *
376110 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
376153 CTTT
1 CTTT
376157 TCCATCTTTA
Statistics
Matches: 326, Mismatches: 28, Indels: 36
0.84 0.07 0.09
Matches are distributed among these distances:
43 160 0.49
44 1 0.00
45 2 0.01
47 2 0.01
48 1 0.00
49 160 0.49
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (43 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:375857 original size:49 final size:47
Alignment explanation
Indices: 375730--376205 Score: 462
Period size: 49 Copynumber: 10.1 Consensus size: 47
375720 CATAAGTTGG
* *
375730 TGGCATCTTTGTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCATC-TT-TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
*
375779 TGGCA-C---CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
*
375822 TGGCATCTTTTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATAT
1 TGGCATC--TTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* *
375871 TGGCA-C---CTTTAAGTCCAATATCGCTGGCCTTGAATCAACATAT
1 TGGCATCTTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* * * * *
375914 TGGCATATTCACCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATAA
1 TGGCATCTT--TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* * * *
375963 TGGCATCTTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGTACAT
1 TGGCATCTT--TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* *
376012 TGGCA-C---CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATAT
1 TGGCATCTTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* * * *
376055 TGGCATATTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACAT
1 TGGCAT-CT-TTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
376104 TGGCA-C---CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* * * * *
376147 TAGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCA--TCTT---TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
*
376199 TGACATC
1 TGGCATC
376206 CTTTTTCTCA
Statistics
Matches: 362, Mismatches: 38, Indels: 53
0.80 0.08 0.12
Matches are distributed among these distances:
43 155 0.43
44 1 0.00
48 3 0.01
49 165 0.46
50 1 0.00
52 37 0.10
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (47 bp):
TGGCATCTTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
Found at i:375887 original size:92 final size:89
Alignment explanation
Indices: 375741--376156 Score: 475
Period size: 92 Copynumber: 4.5 Consensus size: 89
375731 GGCATCTTTG
* *
375741 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCTGG
*
375806 CCTTGAATCAGCATATTGGCATCTTTT
66 CCTTGAATCAGCACATTGGCATC---T
*
375833 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCTGG
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCTGG
* * *
375898 CCTTGAATCAACATATTGGCATAT
66 CCTTGAATCAGCACATTGGCATCT
* * *
375922 TCACCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATAATGGCATCTTCACCTTTAAGTCCAA
1 T---CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG------CACCTTTAAGTCCAA
*
375987 TATCGCTGGCCTTGAATCAGTACATTGGCA-C-
57 TATCGCTGGCCTTGAATCAGCACATTGGCATCT
* * *
376018 -CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCATATTCTTCTTTAAGTCCAATGT
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC--A--C--CTTTAAGTCCAATAT
* *
376082 AGCTGGCCTTGAATTAGCACATTGGCA-C-
60 CGCTGGCCTTGAATCAGCACATTGGCATCT
*
376110 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTT
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
376157 TCCATCTTTA
Statistics
Matches: 288, Mismatches: 21, Indels: 36
0.83 0.06 0.10
Matches are distributed among these distances:
86 5 0.02
88 2 0.01
89 2 0.01
90 2 0.01
92 235 0.82
98 42 0.15
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (89 bp):
TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCTGG
CCTTGAATCAGCACATTGGCATCT
Found at i:376948 original size:32 final size:33
Alignment explanation
Indices: 376883--376954 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
376873 AATTTCAATG
376883 ATTTATATCGATACATAAAGTATTGTATCGATAC
1 ATTT-TATCGATACATAAAGTATTGTATCGATAC
* *
376917 ATTTTATCGATACAT-AAGTTTTGTATTGATAC
1 ATTTTATCGATACATAAAGTATTGTATCGATAC
*
376949 AATTTA
1 ATTTTA
376955 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 20 0.57
33 11 0.31
34 4 0.11
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (33 bp):
ATTTTATCGATACATAAAGTATTGTATCGATAC
Found at i:377010 original size:13 final size:13
Alignment explanation
Indices: 376992--377016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
376982 ATTACGCAAA
376992 TGTATCGATACAT
1 TGTATCGATACAT
377005 TGTATCGATACA
1 TGTATCGATACA
377017 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:377081 original size:52 final size:52
Alignment explanation
Indices: 377025--377153 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
377015 CACTGATCTT
*
377025 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
377077 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
377129 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
377154 TCATATTTTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:381000 original size:58 final size:59
Alignment explanation
Indices: 380953--381146 Score: 180
Period size: 59 Copynumber: 3.3 Consensus size: 59
380943 TGGGCCTTTC
* *
380953 ATCAACACATTGGCATTTGTCAGA-CCTTCGTTCTC-AAGTCTAATGTCGTCGGCCCTAA
1 ATCAACACATTGGCACTTGTCAAATCCTTC-TTCTCAAAGTCTAATGTCGTCGGCCCTAA
* * * * * *
381011 ATCAACATATTAGCACTTGTCAAATCTTTCTTTTCAAAGTCTAATGTCGTTGGCCCTGA
1 ATCAACACATTGGCACTTGTCAAATCCTTCTTCTCAAAGTCTAATGTCGTCGGCCCTAA
* ** * * *
381070 ATCAACACATTGGGACTCATCAAAT-TTTCCTTTTCAAAATCTAATGTCG-CTGGCCCTAA
1 ATCAACACATTGGCACTTGTCAAATCCTT-CTTCTCAAAGTCTAATGTCGTC-GGCCCTAA
* * *
381129 ATCAGCATATTAGCACTT
1 ATCAACACATTGGCACTT
381147 TCTTCATCTT
Statistics
Matches: 111, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
58 27 0.24
59 84 0.76
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (59 bp):
ATCAACACATTGGCACTTGTCAAATCCTTCTTCTCAAAGTCTAATGTCGTCGGCCCTAA
Found at i:381059 original size:59 final size:59
Alignment explanation
Indices: 380988--381146 Score: 205
Period size: 59 Copynumber: 2.7 Consensus size: 59
380978 CTTCGTTCTC
*
380988 AAGTCTAATGTCGTCGGCCCTAAATCAACATATTAGCACTTGTCAAATCTTT-CTTTTCA
1 AAGTCTAATGTCGTCGGCCCTAAATCAACATATTAGCACTTATCAAAT-TTTCCTTTTCA
* * * * * *
381047 AAGTCTAATGTCGTTGGCCCTGAATCAACACATTGGGACTCATCAAATTTTCCTTTTCA
1 AAGTCTAATGTCGTCGGCCCTAAATCAACATATTAGCACTTATCAAATTTTCCTTTTCA
* *
381106 AAATCTAATGTCG-CTGGCCCTAAATCAGCATATTAGCACTT
1 AAGTCTAATGTCGTC-GGCCCTAAATCAACATATTAGCACTT
381147 TCTTCATCTT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
58 3 0.04
59 80 0.96
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (59 bp):
AAGTCTAATGTCGTCGGCCCTAAATCAACATATTAGCACTTATCAAATTTTCCTTTTCA
Found at i:381316 original size:52 final size:52
Alignment explanation
Indices: 381116--381295 Score: 146
Period size: 52 Copynumber: 3.5 Consensus size: 52
381106 AAATCTAATG
* * * * * * * *
381116 TCGCTGGCCCTAAATCAGCATATTAGCAC-TTTCTTCATCTTTAAATTTGATG
1 TCGCTGGCCTTGAATCAACATATTCGCACATTT-ATCATCTTTAAGTTCGATA
* * * *** * * * * * *
381168 TTGCTGGCCTTGAATCAGCACATTATTACCTTCACCATCTCTAAGTCCAATA
1 TCGCTGGCCTTGAATCAACATATTCGCACATTTATCATCTTTAAGTTCGATA
* *
381220 TCGTTGGCCTTGAATCAGCATATTCGCACATTTATCATCTTTAAGTTCGATA
1 TCGCTGGCCTTGAATCAACATATTCGCACATTTATCATCTTTAAGTTCGATA
381272 TCGCTGGCCTTGAATCAACATATT
1 TCGCTGGCCTTGAATCAACATATT
381296 GACATCTTTT
Statistics
Matches: 98, Mismatches: 29, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
52 96 0.98
53 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (52 bp):
TCGCTGGCCTTGAATCAACATATTCGCACATTTATCATCTTTAAGTTCGATA
Found at i:381403 original size:52 final size:52
Alignment explanation
Indices: 381310--381570 Score: 172
Period size: 52 Copynumber: 4.8 Consensus size: 52
381300 TCTTTTTCAT
* * * *
381310 TCTT-AAGCCCAATGCCGCTAGCCTTAAATTATCACATTGGCATTCTTC-TCA
1 TCTTCAAGTCCAATGTCGCTAGCCTTAAATCAGCACATTGGCATTCTTCGT-A
*
381361 TCTTCAAGTCTAATGTCGCTAGCCATT-AATCAGCACATTGGCATTCTTCGTA
1 TCTTCAAGTCCAATGTCGCTAGCC-TTAAATCAGCACATTGGCATTCTTCGTA
* * * * *
381413 TCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATCGGTACCTTTATTATTCTTC-TCA
1 TCTTCAAGTCCAATGTCGCTAGCCTTAAATCAGCACATTGG---C------ATTCTTCGT-A
* * * * *
381474 TCTTCAAGTCCAATGTCGTTAGCCTTGAATCAACACATTGGCA-CCTTGTGTCA
1 TCTTCAAGTCCAATGTCGCTAGCCTTAAATCAGCACATTGGCATTCTT-CGT-A
* * * * * *
381527 TCTTTAAGCCCAATATCGCTAGCCTTGAATTAGCATATTGGCAT
1 TCTTCAAGTCCAATGTCGCTAGCCTTAAATCAGCACATTGGCAT
381571 CTTTATCATT
Statistics
Matches: 168, Mismatches: 25, Indels: 31
0.75 0.11 0.14
Matches are distributed among these distances:
51 9 0.05
52 71 0.42
53 42 0.25
55 1 0.01
58 1 0.01
60 1 0.01
61 43 0.26
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (52 bp):
TCTTCAAGTCCAATGTCGCTAGCCTTAAATCAGCACATTGGCATTCTTCGTA
Found at i:381511 original size:113 final size:114
Alignment explanation
Indices: 381350--381631 Score: 356
Period size: 114 Copynumber: 2.5 Consensus size: 114
381340 ATCACATTGG
* * * *
381350 CATTCTTCTCATCTTCAAGTCTAATGTCGCTAGCCATT-AATCAGCACATTGGCATTCTT-CGT-
1 CATTCTTCTCATCTTCAAGTCCAATGTCGTTAGCC-TTGAATCAACACATTGGCA-CCTTGCGTC
* *
381412 ATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATCGGTACCTTTAT
64 ATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATCGGCACCTTTAT
* *
381463 TATTCTTCTCATCTTCAAGTCCAATGTCGTTAGCCTTGAATCAACACATTGGCACCTTGTGTCAT
1 CATTCTTCTCATCTTCAAGTCCAATGTCGTTAGCCTTGAATCAACACATTGGCACCTTGCGTCAT
* * *
381528 CTTTAAGCCCAATATCGCTAGCCTTGAATTAGCATATTGGCATCTTTAT
66 CTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATCGGCACCTTTAT
* * * * * *
381577 CATTCTTCTCATCTTTAAGCCCAATATCATT-GGCTCTGAATCAACATATTGGCAC
1 CATTCTTCTCATCTTCAAGTCCAATGTCGTTAGCCT-TGAATCAACACATTGGCAC
381632 ATTTATCATT
Statistics
Matches: 147, Mismatches: 18, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
112 5 0.03
113 52 0.35
114 90 0.61
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (114 bp):
CATTCTTCTCATCTTCAAGTCCAATGTCGTTAGCCTTGAATCAACACATTGGCACCTTGCGTCAT
CTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATCGGCACCTTTAT
Found at i:381520 original size:61 final size:61
Alignment explanation
Indices: 381402--381647 Score: 224
Period size: 61 Copynumber: 4.2 Consensus size: 61
381392 AGCACATTGG
* * * *
381402 CATTCTTCGT-ATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATCGGTACCTTTAT
1 CATTCTTC-TCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTTAT
* * * * * *
381463 TATTCTTCTCATCTTCAAGTCCAATGTCGTTAGCCTTGAATCAACACATTGGCA-C-----
1 CATTCTTCTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTTAT
* * * * *
381518 C-TT-GTGTCATCTTTAAGCCCAATATCGCTAGCCTTGAATTAGCATATTGGCATCTTTAT
1 CATTCTTCTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTTAT
* * * *
381577 CATTCTTCTCATCTTTAAGCCCAATATC-ATTGGCTCTGAATCAACATATTGGCACATTTAT
1 CATTCTTCTCATCTTTAAGCCCAATATCGCTAGCCT-TGAATCAACATATTGGCACCTTTAT
*
381638 CATTTTTCTC
1 CATTCTTCTC
381648 GTCCTTGACA
Statistics
Matches: 147, Mismatches: 28, Indels: 20
0.75 0.14 0.10
Matches are distributed among these distances:
53 40 0.27
54 3 0.02
59 1 0.01
60 8 0.05
61 95 0.65
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (61 bp):
CATTCTTCTCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTTAT
Found at i:382341 original size:19 final size:20
Alignment explanation
Indices: 382293--382350 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
382283 AATTTTTACA
382293 ATTTGTATCGATACAAACAAT
1 ATTTGTATCGATACAAA-AAT
** *
382314 AAATGTATCGATACAAAAGT
1 ATTTGTATCGATACAAAAAT
382334 -TTTGTATCGATACAAAA
1 ATTTGTATCGATACAAAA
382351 CTACCCTGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.47
20 2 0.06
21 15 0.47
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (20 bp):
ATTTGTATCGATACAAAAAT
Found at i:389186 original size:26 final size:27
Alignment explanation
Indices: 389136--389186 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
389126 TTTCTTCACT
* *
389136 GGGGGTACTCTAACCCCATTCTTTCGA
1 GGGGATACTCCAACCCCATTCTTTCGA
*
389163 GGGGATACTCCAACCTCATT-TTTC
1 GGGGATACTCCAACCCCATTCTTTC
389187 TTAAAGCGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (27 bp):
GGGGATACTCCAACCCCATTCTTTCGA
Found at i:391551 original size:155 final size:156
Alignment explanation
Indices: 390942--391554 Score: 502
Period size: 155 Copynumber: 4.0 Consensus size: 156
390932 CACTTTTGCT
* * * ** * * *
390942 TCCTTTAAAGGTACCGAGTACTTTTACGTTAAAG-GTATCTCCTA-AAGCATTTTAGTAATTTTC
1 TCCTTTAGAGGTACCAAGTACTTTTATGTCGAAGAGTATCCCCTAGAGGCATTTTAGTAATTTTT
* * ** * * * *
391005 CTAGAACCGAGTCTTAGGTTATCACCGGGTTTGTTTCTATGCCGAAAG-CGGGTAA-TTAGGATG
66 CTAAAACCGAGTCCTAGGTTATCACCGGGTCCGCTT-TATGCCGAAAGATGAG-AATTTAGGATA
* * *
391068 GGTTCATCTCTTCTATAAT-CTTTTTAAG
129 GGTTCATCCCATCTA-AATCCTTTTTAGG
* * * * *
391096 TCCTTTAGGGGTATCGAGTACTTTTATGTCGAA-AGTATCCCCTAG-GTGCATTTTAATAA-GTT
1 TCCTTTAGAGGTACCAAGTACTTTTATGTCGAAGAGTATCCCCTAGAG-GCATTTTAGTAATTTT
* * ** * *
391158 TCTAAAACCAAGTCCTAGGTTGTCACTTGGTCCGCGTTTACGCCG-AAGATGAGTATTTAGGATA
65 TCTAAAACCGAGTCCTAGGTTATCACCGGGTCCGC-TTTATGCCGAAAGATGAGAATTTAGGATA
*
391222 GGTTCATCCCATCTAAATTCTTTTTAGG
129 GGTTCATCCCATCTAAATCCTTTTTAGG
* * * *** * *
391250 TCCTTTAGAGGTATCAGGTACTTTTATGTC-AAAAGTATCTTTTAGGGGCATTTTCGTAATTTTT
1 TCCTTTAGAGGTACCAAGTACTTTTATGTCGAAGAGTATCCCCTAGAGGCATTTTAGTAATTTTT
** * * ** * *
391314 CTCGAACTGAGTCCTAGGTCATCATTGGGTCCACTTTTATGCTG-AAGAT-AGGAATTTAGGATA
66 CTAAAACCGAGTCCTAGGTTATCACCGGGTCCGC-TTTATGCCGAAAGATGA-GAATTTAGGATA
*
391377 GGTTCATCCCATCTAAATCCTTCTTAGG
129 GGTTCATCCCATCTAAATCCTTTTTAGG
*
391405 TCCTTTAGAGATACCAAGTACTTTTATGTCGAAGA-TATCCCCTAGAGGCATTTTAGTAATTTCT
1 TCCTTTAGAGGTACCAAGTACTTTTATGTCGAAGAGTATCCCCTAGAGGCATTTTAGTAATTT-T
* * * * * * *
391469 TC-AAAACTGAGTCTTAGGTTGTCACCGGGTCTGCTTATATGGC-AAAGGTGAGCA-TTAGGATA
65 TCTAAAACCGAGTCCTAGGTTATCACCGGGTCCGCTT-TATGCCGAAAGATGAGAATTTAGGATA
* *
391531 GGTTCAACCCTTCTATAATCCTTT
129 GGTTCATCCCATCTA-AATCCTTT
391555 AAGTCTTCTA
Statistics
Matches: 365, Mismatches: 77, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
153 9 0.02
154 169 0.46
155 180 0.49
156 7 0.02
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (156 bp):
TCCTTTAGAGGTACCAAGTACTTTTATGTCGAAGAGTATCCCCTAGAGGCATTTTAGTAATTTTT
CTAAAACCGAGTCCTAGGTTATCACCGGGTCCGCTTTATGCCGAAAGATGAGAATTTAGGATAGG
TTCATCCCATCTAAATCCTTTTTAGG
Found at i:393072 original size:177 final size:176
Alignment explanation
Indices: 392745--393097 Score: 600
Period size: 177 Copynumber: 2.0 Consensus size: 176
392735 TCTTTGATGG
* *
392745 TCTAAAATATTTGAGATCGAGTGCTGAGTGATCGTCCTAGCAAGGGTTGACCTCTTCCAAGCTTG
1 TCTAAAATATTTGAGATCGAGTGCTGAGTGACCGTCCTAGCAAGGGTTGACCTCTTCCAAGCTTC
* * *
392810 CCAAGCCTTTTTGAGATTTATTTAGTCATATTAAGATGACTACTTACAAGTACAGTCAAAAGTTT
66 CCAAGCCTTTTGGAAATTTATTTAGTCATATTAAGATGACTACTTACAAATACAGTCAAAAGTTT
* * *
392875 GTATTTTCAGGCTTGATAGAACATATATCCTAGATAAAAAATATGA
131 GTAATTTCAGGCTCGATAGAACATAAATCCTAGATAAAAAATATGA
392921 TCTAAAATATTTGAGATCGAGTGCTGAGTGACCGTCCTAGCAAGGGTTGACCTCTTCCAAGCTTA
1 TCTAAAATATTTGAGATCGAGTGCTGAGTGACCGTCCTAGCAAGGGTTGACCTCTTCCAAGCTT-
*
392986 CCCAAGCCTTTTGGAAATTTATTTAGTCATATTAAGATGACTACTTACAAATATAGTCAAAAGTT
65 CCCAAGCCTTTTGGAAATTTATTTAGTCATATTAAGATGACTACTTACAAATACAGTCAAAAGTT
393051 TGTAATTTCA-GCATCGATAGAACATAAATCCTAGATAAAAAATATGA
130 TGTAATTTCAGGC-TCGATAGAACATAAATCCTAGATAAAAAATATGA
393098 ATGTTAGAGA
Statistics
Matches: 166, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
176 65 0.39
177 101 0.61
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (176 bp):
TCTAAAATATTTGAGATCGAGTGCTGAGTGACCGTCCTAGCAAGGGTTGACCTCTTCCAAGCTTC
CCAAGCCTTTTGGAAATTTATTTAGTCATATTAAGATGACTACTTACAAATACAGTCAAAAGTTT
GTAATTTCAGGCTCGATAGAACATAAATCCTAGATAAAAAATATGA
Found at i:397713 original size:79 final size:79
Alignment explanation
Indices: 397581--397784 Score: 214
Period size: 79 Copynumber: 2.6 Consensus size: 79
397571 TCATTGATGT
* * * * ** * * *
397581 TTTTATTTTTGAAATACCGATTTTTCACCTTCGGGGATACTCCAACCTTGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTTCACCATCGGGGATACTCCAACCCCGTTATCTCTGAAGGGA
397646 TACTCCAACCCCAA
66 TACTCCAACCCCAA
*
397660 TTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCCAACCCCGTTATCTCTGAAGGGA
1 TTTTATTTCTAAAACACCGATTTTTCACCATCGGGGATACTCCAACCCCGTTATCTCTGAAGGGA
* ***
397725 TACTCCAATCCTGG
66 TACTCCAACCCCAA
* * ** *
397739 GTTTATTTCTAAAA-ACC-AATTTTCAACCATCAAGGATACTTCAACC
1 TTTTATTTCTAAAACACCGATTTTTC-ACCATCGGGGATACTCCAACC
397785 TCAATTTTAT
Statistics
Matches: 104, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
77 6 0.06
78 20 0.19
79 78 0.75
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (79 bp):
TTTTATTTCTAAAACACCGATTTTTCACCATCGGGGATACTCCAACCCCGTTATCTCTGAAGGGA
TACTCCAACCCCAA
Found at i:397797 original size:50 final size:51
Alignment explanation
Indices: 397740--397837 Score: 139
Period size: 51 Copynumber: 1.9 Consensus size: 51
397730 CAATCCTGGG
397740 TTTATTTCTAAAA-ACCAA-TTTTCAACCATCAAGGATACT-TCAACCTCAAT
1 TTTATTTCTAAAACACCAATTTTTC-ACCATCAAGGATACTCT-AACCTCAAT
* *
397790 TTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCTAACCTC
1 TTTATTTCTAAAACACCAATTTTTCACCATCAAGGATACTCTAACCTC
397838 GTCATTTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
50 13 0.30
51 24 0.56
52 6 0.14
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (51 bp):
TTTATTTCTAAAACACCAATTTTTCACCATCAAGGATACTCTAACCTCAAT
Found at i:397873 original size:129 final size:128
Alignment explanation
Indices: 397643--397915 Score: 368
Period size: 129 Copynumber: 2.1 Consensus size: 128
397633 ATTTTTGAGG
* * *
397643 GGATACTCCAACCCCAATTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCCAACCC
1 GGATACTCCAACCTCAATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCAACCC
* * * * *
397708 CGTTATCTCTGAAGGGATACTCCAATCCTGGGTTTATTTCTAAAA-ACCAATTTTCAACCATCAA
66 CGTCATCTCTGAAAGGATACTCCAACCCTGAGTTTATTTCTAAAACACCAATTATC-ACCAT-AA
* * *
397772 GGATACTTCAACCTCAATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCTAACCT
1 GGATACTCCAACCTCAATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCAACCC
* * * * *
397837 CGTCATTTTTGAAAGGATACTCCAACCCTGATTTTATTTCTAAAACACCGATTATCACCATTA
66 CGTCATCTCTGAAAGGATACTCCAACCCTGAGTTTATTTCTAAAACACCAATTATCACCATAA
397900 GAGATACTCCAACCTC
1 G-GATACTCCAACCTC
397916 GTTATCTCTA
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
128 2 0.02
129 115 0.92
130 8 0.06
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.32
Consensus pattern (128 bp):
GGATACTCCAACCTCAATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCAACCC
CGTCATCTCTGAAAGGATACTCCAACCCTGAGTTTATTTCTAAAACACCAATTATCACCATAA
Found at i:397994 original size:208 final size:208
Alignment explanation
Indices: 397600--397994 Score: 535
Period size: 208 Copynumber: 1.9 Consensus size: 208
397590 TGAAATACCG
* * * * **
397600 ATTTTTCACCTTCGGGGATACTCCAACCTTGTTATTTTTGAGGGGATACTCCAACCCCAATTTTA
1 ATTTTTCACCATCGAGGATACTCCAACCTCGTCATTTTTGAAAGGATACTCCAACCCCAATTTTA
* * * *
397665 TTTCTAAAACACTGATTTTTCACCATCGGGGATACTCCAACCCCGTTATCTCTGAAGGGATACTC
66 TTTCTAAAACACCGATTTATCACCATCAGAGATACTCCAACCCCGTTATCTCTGAAGGGATACTC
* * ** *
397730 CAATCCTGGGTTTATTTCTAAAAACCAATTTTCAACCATCAAGGATACTTCAACCTCAATTTTAT
131 CAACCCTGGGTTTATCTCTAAAAACCAATTTTCAACCATCAAAAATACTCCAACCTCAATTTTAT
397795 TTCTAAAACACTA
196 TTCTAAAACACTA
* **
397808 ATTTTTCACCATCGAGGATACTCTAACCTCGTCATTTTTGAAAGGATACTCCAACCCTGATTTTA
1 ATTTTTCACCATCGAGGATACTCCAACCTCGTCATTTTTGAAAGGATACTCCAACCCCAATTTTA
* *
397873 TTTCTAAAACACCGA-TTATCACCATTAGAGATACTCCAACCTCGTTATCTCT-AAGGGGATACT
66 TTTCTAAAACACCGATTTATCACCATCAGAGATACTCCAACCCCGTTATCTCTGAA-GGGATACT
* * *
397936 CCAACCCTGGTTTTATCTCTAAAACACCGATTTTTC-ACCGTCAAAAATACTCCAACCTC
130 CCAACCCTGGGTTTATCTCTAAAA-ACC-AATTTTCAACCATCAAAAATACTCCAACCTC
397995 GTTATTTTCG
Statistics
Matches: 161, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
206 2 0.01
207 61 0.38
208 92 0.57
209 6 0.04
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.33
Consensus pattern (208 bp):
ATTTTTCACCATCGAGGATACTCCAACCTCGTCATTTTTGAAAGGATACTCCAACCCCAATTTTA
TTTCTAAAACACCGATTTATCACCATCAGAGATACTCCAACCCCGTTATCTCTGAAGGGATACTC
CAACCCTGGGTTTATCTCTAAAAACCAATTTTCAACCATCAAAAATACTCCAACCTCAATTTTAT
TTCTAAAACACTA
Found at i:398002 original size:157 final size:157
Alignment explanation
Indices: 397772--398177 Score: 453
Period size: 157 Copynumber: 2.6 Consensus size: 157
397762 CAACCATCAA
* * ** *
397772 GGATACTTCAACCTCA-ATTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCTAACC
1 GGATACTCCAACCT-AGGTTTTATTTCTAAAACACCGATTTTTCACCATCGAGGATACTCCAACC
*
397836 TCGTCATTTTTGAAAGGATACTCCAACCCTGATTTTATTTCTAAAACACCGATTAT-CACCATTA
65 TCGTTATTTTTGAAAGGATACTCCAACCCTGATTTTATTTCTAAAACACCGATTATCCACC-TTA
* * *
397900 GAGATACTCCAACCTCGTTA-TCTCTAAGG
129 GAGATACTCCAACCCCATTATTCTCGAA-G
* * * **
397929 GGATACTCCAACCCT-GGTTTTATCTCTAAAACACCGATTTTTCACCGTCAAAAATACTCCAACC
1 GGATACTCCAA-CCTAGGTTTTATTTCTAAAACACCGATTTTTCACCATCGAGGATACTCCAACC
* * * * * *
397993 TCGTTATTTTCGAGAGGATACTCCAACCCTGGTTTTATTTCTAAAACATCGATTTTCCACCTTCG
65 TCGTTATTTTTGAAAGGATACTCCAACCCTGATTTTATTTCTAAAACACCGATTATCCACCTTAG
* * *
398058 GGGTACTCCAACCCCATTATTTTCGAAG
130 AGATACTCCAACCCCATTATTCTCGAAG
* * * * * * *
398086 GGATACTCTAACCTAGGTTTTATTTTTAAAATATCGATTTCTCACCATCGGGGATACTCCAACCC
1 GGATACTCCAACCTAGGTTTTATTTCTAAAACACCGATTTTTCACCATCGAGGATACTCCAACCT
*
398151 CGTTGTTTTTG-AAGGAATACTCCAACC
66 CGTTATTTTTGAAAGG-ATACTCCAACC
398178 TCATTTTTAT
Statistics
Matches: 205, Mismatches: 38, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
156 6 0.03
157 187 0.91
158 12 0.06
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (157 bp):
GGATACTCCAACCTAGGTTTTATTTCTAAAACACCGATTTTTCACCATCGAGGATACTCCAACCT
CGTTATTTTTGAAAGGATACTCCAACCCTGATTTTATTTCTAAAACACCGATTATCCACCTTAGA
GATACTCCAACCCCATTATTCTCGAAG
Found at i:398021 original size:79 final size:78
Alignment explanation
Indices: 397789--398177 Score: 392
Period size: 79 Copynumber: 4.9 Consensus size: 78
397779 TCAACCTCAA
** * * *
397789 TTTTATTTCTAAAACACTAATTTTTCACCATC-GAGGATACTCTAACCTCGTCATTTTTGAAAGG
1 TTTTATTTCTAAAACACCGATTTTTCACCATCAG-GGATACTCCAACCTCGTTATTTTCG-AAGG
*
397853 ATACTCCAACCCTGA
64 ATACTCCAACCCTGG
* * * * *
397868 TTTTATTTCTAAAACACCGA-TTATCACCATTAGAGATACTCCAACCTCGTTA-TCTCTAAGGGG
1 TTTTATTTCTAAAACACCGATTTTTCACCATCAGGGATACTCCAACCTCGTTATTTTCGAA--GG
397931 ATACTCCAACCCTGG
64 ATACTCCAACCCTGG
* * ***
397946 TTTTATCTCTAAAACACCGATTTTTCACCGTCAAAAATACTCCAACCTCGTTATTTTCGAGAGGA
1 TTTTATTTCTAAAACACCGATTTTTCACCATCAGGGATACTCCAACCTCGTTATTTTCGA-AGGA
398011 TACTCCAACCCTGG
65 TACTCCAACCCTGG
* * * * * *
398025 TTTTATTTCTAAAACATCGATTTTCCACCTTC-GGGGTACTCCAACCCCATTATTTTCGAAGGGA
1 TTTTATTTCTAAAACACCGATTTTTCACCATCAGGGATACTCCAACCTCGTTATTTTCGAA-GGA
*
398089 TACTCTAA-CCTAGG
65 TACTCCAACCCT-GG
* * * * * * * *
398103 TTTTATTTTTAAAATATCGATTTCTCACCATCGGGGATACTCCAACCCCGTTGTTTTTGAAGGAA
1 TTTTATTTCTAAAACACCGATTTTTCACCATCAGGGATACTCCAACCTCGTTATTTTCGAAGG-A
398168 TACTCCAACC
65 TACTCCAACC
398178 TCATTTTTAT
Statistics
Matches: 259, Mismatches: 40, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
76 2 0.01
77 6 0.02
78 122 0.47
79 123 0.47
80 5 0.02
81 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (78 bp):
TTTTATTTCTAAAACACCGATTTTTCACCATCAGGGATACTCCAACCTCGTTATTTTCGAAGGAT
ACTCCAACCCTGG
Found at i:403849 original size:79 final size:80
Alignment explanation
Indices: 403637--403923 Score: 255
Period size: 79 Copynumber: 3.6 Consensus size: 80
403627 TCACTGATAT
* * * ** * *
403637 TTTTATTTCTGAAACAC-CAATTTTTCACCATTGAGGATACTCTAACCCTGTTATTTCCGAGAAG
1 TTTTATTTCTAAAACACTCAATTTTTCACCATCGGGGATACTCTAACCCCATTATTTTCGAAAAG
*
403701 ATACTCCAACCTCGA
66 ATACTCCAACCCCGA
* ** * * * * *
403716 TTTTATTTCTAAAATA-TCAA-TTTTCAATGATTGGGGATACT-TCAATCTCGTTATTTTCAAAA
1 TTTTATTTCTAAAACACTCAATTTTTC-ACCATCGGGGATACTCT-AACCCCATTATTTTCGAAA
403778 AGATACTCCAACCCCGA
64 AGATACTCCAACCCCGA
* * **
403795 TTTTATTTCTGAAACACT-AATTTTTCACCATCGGGGATACTCTAACCCCATTATTTTTGAAGGG
1 TTTTATTTCTAAAACACTCAATTTTTCACCATCGGGGATACTCTAACCCCATTATTTTCGAAAAG
* *
403859 ACACTCCAA-CCCTA
66 ATACTCCAACCCCGA
* * * * *
403873 GTTTTATCTCTAAAAC-CTCGATTTTCCACCATCGGAGATACTCCAACCCCA
1 -TTTTATTTCTAAAACACTCAATTTTTCACCATCGGGGATACTCTAACCCCA
403924 GTTTTATCTC
Statistics
Matches: 168, Mismatches: 32, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
78 12 0.07
79 149 0.89
80 7 0.04
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (80 bp):
TTTTATTTCTAAAACACTCAATTTTTCACCATCGGGGATACTCTAACCCCATTATTTTCGAAAAG
ATACTCCAACCCCGA
Found at i:403927 original size:51 final size:51
Alignment explanation
Indices: 403861--403973 Score: 165
Period size: 51 Copynumber: 2.2 Consensus size: 51
403851 TTGAAGGGAC
* *
403861 ACTCCAACCCTAGTTTTATCTCTAAAACCTCGATTTTCCACCATCG-GAGAT
1 ACTCCAACCCCAGTTTTATCTCTAAAACATCGATTTTCCACCATCGCG-GAT
* *
403912 ACTCCAACCCCAGTTTTATCTCTAAAACATCGATTTTTCACTATCGCGGAT
1 ACTCCAACCCCAGTTTTATCTCTAAAACATCGATTTTCCACCATCGCGGAT
*
403963 ACTCTAACCCC
1 ACTCCAACCCC
403974 GTTATTTCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.33, G:0.09, T:0.31
Consensus pattern (51 bp):
ACTCCAACCCCAGTTTTATCTCTAAAACATCGATTTTCCACCATCGCGGAT
Found at i:403948 original size:130 final size:132
Alignment explanation
Indices: 403778--404052 Score: 357
Period size: 130 Copynumber: 2.1 Consensus size: 132
403768 ATTTTCAAAA
* * *
403778 AGATACTCCAACCCC-GATTTTATTTCTGAAACACTAATTTTTCACCATCGGGGATACTCTAACC
1 AGATACTCCAACCCCAGATTTTATCTCTAAAACACTAATTTTTCACCATCGCGGATACTCTAACC
* * *
403842 CCATTATTTTTGAAG-GGACACTCCAACCCTAGTTTTATCTCTAAAACCTCGATTTTCCACCATC
66 CCATTATTTCT-AAGAGGACACTCCAACCCCAGTTTTATCTCTAAAACATCGATTTTCCACCATC
403906 -GG
130 AGG
* *
403908 AGATACTCCAACCCCAG-TTTTATCTCTAAAACA-TCGATTTTTCACTATCGCGGATACTCTAAC
1 AGATACTCCAACCCCAGATTTTATCTCTAAAACACT-AATTTTTCACCATCGCGGATACTCTAAC
* * * * * *
403971 CCCGTTATTTCTAAGAGGATACTCCAACCCCGGTTTTATTTCTAAAATATCTATTTTCCACCATC
65 CCCATTATTTCTAAGAGGACACTCCAACCCCAGTTTTATCTCTAAAACATCGATTTTCCACCATC
404036 AGG
130 AGG
404039 -GATA-TCCAACCCCA
1 AGATACTCCAACCCCA
404053 TTGTTTTTTA
Statistics
Matches: 127, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
129 14 0.11
130 110 0.87
131 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (132 bp):
AGATACTCCAACCCCAGATTTTATCTCTAAAACACTAATTTTTCACCATCGCGGATACTCTAACC
CCATTATTTCTAAGAGGACACTCCAACCCCAGTTTTATCTCTAAAACATCGATTTTCCACCATCA
GG
Found at i:404042 original size:79 final size:78
Alignment explanation
Indices: 403909--404156 Score: 257
Period size: 79 Copynumber: 3.2 Consensus size: 78
403899 CACCATCGGA
* * * * * *
403909 GATACTCCAACCCCAGTTTTATCTCTAAAACATCGATTTTTCACTATCGCGGATACTCTAACCCC
1 GATACTCCAACCCCAGTTTTATTTCTAAAATATCTATTTTCCACCATCG-GGATACTCCAACCCC
* * *
403974 GTTATTTCTAAGAG
65 GTTGTTTTTAAGGG
*
403988 GATACTCCAACCCCGGTTTTATTTCTAAAATATCTATTTTCCACCATCAGGGATA-TCCAACCCC
1 GATACTCCAACCCCAGTTTTATTTCTAAAATATCTATTTTCCACCATC-GGGATACTCCAACCCC
* *
404052 ATTGTTTTTTAGGG
65 GTTGTTTTTAAGGG
* ** * * *
404066 GATAATTTAACCCCAATTTTATTTCCAAAATATATA-TTTCTCACCATCGGGGATACTCCAACCC
1 GATACTCCAACCCCAGTTTTATTTCTAAAATATCTATTTTC-CACCATC-GGGATACTCCAACCC
* *
404130 TGTTGTTTTTGAGGG
64 CGTTGTTTTTAAGGG
*
404145 GATACTTCAACC
1 GATACTCCAACC
404157 TCTTCTTTTT
Statistics
Matches: 141, Mismatches: 25, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
77 4 0.03
78 59 0.42
79 77 0.55
80 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (78 bp):
GATACTCCAACCCCAGTTTTATTTCTAAAATATCTATTTTCCACCATCGGGATACTCCAACCCCG
TTGTTTTTAAGGG
Found at i:404086 original size:78 final size:79
Alignment explanation
Indices: 404004--404148 Score: 213
Period size: 78 Copynumber: 1.8 Consensus size: 79
403994 CCAACCCCGG
* * *
404004 TTTTATTTCTAAAATATCTATTT-TCCACCATCAGGGATA-TCCAACCCCATTGTTTTTTAGGGG
1 TTTTATTTCCAAAATATATATTTCT-CACCATCAGGGATACTCCAACCCCATTGTTTTTGAGGGG
404067 ATAATTTAACCCCAA
65 ATAATTTAACCCCAA
* **
404082 TTTTATTTCCAAAATATATATTTCTCACCATCGGGGATACTCCAACCCTGTTGTTTTTGAGGGGA
1 TTTTATTTCCAAAATATATATTTCTCACCATCAGGGATACTCCAACCCCATTGTTTTTGAGGGGA
404147 TA
66 TA
404149 CTTCAACCTC
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
78 34 0.58
79 25 0.42
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.39
Consensus pattern (79 bp):
TTTTATTTCCAAAATATATATTTCTCACCATCAGGGATACTCCAACCCCATTGTTTTTGAGGGGA
TAATTTAACCCCAA
Found at i:404450 original size:142 final size:144
Alignment explanation
Indices: 404288--404571 Score: 527
Period size: 142 Copynumber: 2.0 Consensus size: 144
404278 TCCTAACCCT
404288 TTTTTTTTAAAAAAAAATCTTCATAGAATTCGATCAAGTCTCAACATTGTCATCACGATTATTCA
1 TTTTTTTT-AAAAAAAATCTTCATAGAATTCGATCAAGTCTCAACATTGTCATCACGATTATTCA
404353 TCAATAATCAAAGACAATTACAAAACACACTTCGACCCTCCATCCTTTTTTATGTATTTTTG-TG
65 TCAATAATCAAAGACAATTACAAAACACACTTCGACCCTCCATCCTTTTTTATGTATTTTTGCTG
404417 TGTTATTTTGTAACC
130 TGTTATTTTGTAACC
404432 TTTTTTTT-AAAAAAATCTTCATAGAATTCGATCAAGTCTCAACATTGTCATCACGATTATTCAT
1 TTTTTTTTAAAAAAAATCTTCATAGAATTCGATCAAGTCTCAACATTGTCATCACGATTATTCAT
*
404496 CAATAATCAAAGACAATTACAAAACACACTTCGTCCCTCCATCCTTTTTTATGTATTTTTGTCTG
66 CAATAATCAAAGACAATTACAAAACACACTTCGACCCTCCATCCTTTTTTATGTATTTTTG-CTG
404561 TGTTATTTTGT
130 TGTTATTTTGT
404572 GTGAATTTGT
Statistics
Matches: 137, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
142 116 0.85
144 21 0.15
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.40
Consensus pattern (144 bp):
TTTTTTTTAAAAAAAATCTTCATAGAATTCGATCAAGTCTCAACATTGTCATCACGATTATTCAT
CAATAATCAAAGACAATTACAAAACACACTTCGACCCTCCATCCTTTTTTATGTATTTTTGCTGT
GTTATTTTGTAACC
Found at i:405486 original size:36 final size:35
Alignment explanation
Indices: 405381--405500 Score: 160
Period size: 34 Copynumber: 3.5 Consensus size: 35
405371 TATCTTTTGA
*
405381 AGGCTAAGATAGAACCT-AT--CTATC-TTTTCAC
1 AGGCTAAGATAGAACCTCTTCCCTATCTTTTTCAC
405412 AGGCTAAGATAGAACCTCTTCCCTAT-TTTTTCAC
1 AGGCTAAGATAGAACCTCTTCCCTATCTTTTTCAC
* * *
405446 AGGCTAAGATAGAACTTTTCTCCCTATCTTTTTCAA
1 AGGCTAAGATAGAACCTCT-TCCCTATCTTTTTCAC
405482 AGGCTAAGATAGAACCTCT
1 AGGCTAAGATAGAACCTCT
405501 CAATCACTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
31 17 0.22
32 1 0.01
34 28 0.36
35 7 0.09
36 24 0.31
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (35 bp):
AGGCTAAGATAGAACCTCTTCCCTATCTTTTTCAC
Found at i:406812 original size:27 final size:29
Alignment explanation
Indices: 406757--406818 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
406747 ATACACTATT
* * *
406757 TAACAATTTTCTATTTCTCCGTCTTTTTA
1 TAACACTTCTCTATTTCTCCGTCTCTTTA
406786 TAACACTTCTCTATTTCTCC-TC-CTTTA
1 TAACACTTCTCTATTTCTCCGTCTCTTTA
406813 -AACACT
1 TAACACT
406819 CTTCCCTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 6 0.20
27 4 0.13
28 2 0.07
29 18 0.60
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (29 bp):
TAACACTTCTCTATTTCTCCGTCTCTTTA
Found at i:406995 original size:38 final size:38
Alignment explanation
Indices: 406953--407060 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
406943 TAATTATAAC
*
406953 ACTTCTCTATTTCTTCTCCGTTAAACACTCTTCCCCTT
1 ACTTCTCTATTTCTTCTCCTTTAAACACTCTTCCCCTT
*
406991 ACTTCTCTATTTCTTCTCCTTTAAACACTTTTCCCCTT
1 ACTTCTCTATTTCTTCTCCTTTAAACACTCTTCCCCTT
*
407029 ACTTCTTTATTTCTTCTCCTTTAAACACTCTT
1 ACTTCTCTATTTCTTCTCCTTTAAACACTCTT
407061 AGCTTTTTTC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 66 1.00
ACGTcount: A:0.17, C:0.33, G:0.01, T:0.49
Consensus pattern (38 bp):
ACTTCTCTATTTCTTCTCCTTTAAACACTCTTCCCCTT
Found at i:409040 original size:21 final size:22
Alignment explanation
Indices: 409000--409041 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
408990 TAATTCATCA
*
409000 TTTTCTTCTTGCAACTCATTTC
1 TTTTCTTCTTCCAACTCATTTC
409022 TTTTCTT-TTCCAACTCATTT
1 TTTTCTTCTTCCAACTCATTT
409042 TATTTTCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.14, C:0.26, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTCTTCTTCCAACTCATTTC
Found at i:409047 original size:22 final size:22
Alignment explanation
Indices: 408999--409049 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
408989 TTAATTCATC
*
408999 ATTTTCTTCTTGCAACTCATTT
1 ATTTTCTTCTTCCAACTCATTT
*
409021 CTTTTCTT-TTCCAACTCATTTT
1 ATTTTCTTCTTCCAACTCA-TTT
409043 ATTTTCT
1 ATTTTCT
409050 CCTCTAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.16, C:0.24, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTTCTTCTTCCAACTCATTT
Found at i:412473 original size:21 final size:21
Alignment explanation
Indices: 412449--412495 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
412439 TTTAATGCTG
412449 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
412469 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
412490 ATTTTG
1 ATTTTG
412496 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:412634 original size:13 final size:13
Alignment explanation
Indices: 412616--412654 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
412606 ATAATCACCC
*
412616 TGTATCGATACAG
1 TGTATCGATACAA
412629 TGTATCGATACAA
1 TGTATCGATACAA
412642 TGTATCGATACAA
1 TGTATCGATACAA
412655 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:412665 original size:20 final size:20
Alignment explanation
Indices: 412640--412718 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
412630 GTATCGATAC
412640 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
412660 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
412685 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
412705 CATGTATCGATACA
1 AATGTATCGATACA
412719 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:414752 original size:15 final size:15
Alignment explanation
Indices: 414732--414762 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
414722 ATTTCGTTTG
*
414732 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
414747 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
414762 G
1 G
414763 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:416595 original size:21 final size:21
Alignment explanation
Indices: 416566--416610 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
416556 AAGTTTTCAT
*
416566 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
416586 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
416608 TTT
1 TTT
416611 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:418847 original size:13 final size:13
Alignment explanation
Indices: 418829--418854 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
418819 CAATTTTTTG
418829 TGTATCGATACAT
1 TGTATCGATACAT
418842 TGTATCGATACAT
1 TGTATCGATACAT
418855 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:423773 original size:21 final size:21
Alignment explanation
Indices: 423747--423800 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
423737 AGGATGGTTT
423747 TGTATCGATACATTTCA-TTCA
1 TGTATCGATACATTTCACTT-A
423768 TGTATCGATACA-TTCACTTA
1 TGTATCGATACATTTCACTTA
*
423788 TGTATCAATACAT
1 TGTATCGATACAT
423801 CTACTATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATTTCACTTA
Found at i:424516 original size:34 final size:34
Alignment explanation
Indices: 424449--424578 Score: 169
Period size: 34 Copynumber: 3.9 Consensus size: 34
424439 CTTACAACAC
*
424449 TATCTTTT-GAAGGCTAAGATAGAA---CTTCCT
1 TATCTTTTCAAAGGCTAAGATAGAACCTCTTCCT
424479 TATCTTTTCAAAGGCTAAGATAGAACCTCTTCCT
1 TATCTTTTCAAAGGCTAAGATAGAACCTCTTCCT
* * * *
424513 TATCTTTTCATAGGCTAAAATAGAACCTTTCTCCC
1 TATCTTTTCAAAGGCTAAGATAGAACCTCT-TCCT
424548 TATCTTTTTCAAAGGCTAAGATAGAACCTCT
1 TATC-TTTTCAAAGGCTAAGATAGAACCTCT
424579 CAATCACCTT
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
30 8 0.09
31 15 0.17
34 33 0.38
35 7 0.08
36 23 0.27
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (34 bp):
TATCTTTTCAAAGGCTAAGATAGAACCTCTTCCT
Found at i:427085 original size:48 final size:48
Alignment explanation
Indices: 427014--427111 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
427004 GGATTTGGGA
427014 TAAAAGGTTTAATTGTTCCCTGCACACACTGTACATATACATATGCAT
1 TAAAAGGTTTAATTGTTCCCTGCACACACTGTACATATACATATGCAT
427062 TAAAAGGTTTAATTGTTCCCTGCACACACTGTACATATACATATGCAT
1 TAAAAGGTTTAATTGTTCCCTGCACACACTGTACATATACATATGCAT
427110 TA
1 TA
427112 GACTCTCTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (48 bp):
TAAAAGGTTTAATTGTTCCCTGCACACACTGTACATATACATATGCAT
Found at i:427756 original size:56 final size:56
Alignment explanation
Indices: 427686--427807 Score: 167
Period size: 56 Copynumber: 2.2 Consensus size: 56
427676 ATGTTGTCGA
427686 TTTTTTCAA-ACATCAAACAATGATGAACAAACATCGTTGCTC-ATAAAATGAATAC
1 TTTTTTCAAGACATCAAACAATGATGAACAAACATCGTTGCTCGA-AAAATGAATAC
** * *
427741 TTTTTTCAAGACATCAAACAATGATGAATGAACATTGTTGCTCGAAATATGAATAC
1 TTTTTTCAAGACATCAAACAATGATGAACAAACATCGTTGCTCGAAAAATGAATAC
**
427797 TTCATTCAAGA
1 TTTTTTCAAGA
427808 TGTCATAAGG
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
55 9 0.15
56 49 0.83
57 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (56 bp):
TTTTTTCAAGACATCAAACAATGATGAACAAACATCGTTGCTCGAAAAATGAATAC
Found at i:429371 original size:19 final size:19
Alignment explanation
Indices: 429335--429386 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
429325 TCATCTAAAG
*
429335 AAGAAAAAAATAAGAAAAA
1 AAGAAAAAAATAAAAAAAA
429354 AAGAAAAACAA-AAAAAAACA
1 AAGAAAAA-AATAAAAAAA-A
*
429374 CAAGGAAAAAATA
1 -AAGAAAAAAATA
429387 TGCAAATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 14 0.52
20 5 0.19
21 8 0.30
ACGTcount: A:0.81, C:0.06, G:0.10, T:0.04
Consensus pattern (19 bp):
AAGAAAAAAATAAAAAAAA
Found at i:430999 original size:26 final size:26
Alignment explanation
Indices: 430970--431022 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
430960 ATGACATTGT
* * *
430970 CATTCATATCATTTCACATGCATTTG
1 CATTCACATCATTCCACAAGCATTTG
**
430996 CATTTGCATCATTCCACAAGCATTTG
1 CATTCACATCATTCCACAAGCATTTG
431022 C
1 C
431023 TTAATTTAGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.38
Consensus pattern (26 bp):
CATTCACATCATTCCACAAGCATTTG
Found at i:431551 original size:59 final size:58
Alignment explanation
Indices: 431404--431552 Score: 156
Period size: 59 Copynumber: 2.5 Consensus size: 58
431394 TTTTAGTTTC
* * * * * * *
431404 ATCATTTCATTGAGTTTTGGTTTTGCCTAGGTCATTTTTTTATTTTTGGTTCTATCAAG
1 ATCATTTCTTTGAGTTTTGG-TTTGTCTAAGTCAGTTTATGATATTTGGTTCTATCAAG
* * *
431463 ACCATTTCTTTGAGTTTTGGTTCTATCTAAGTTAGTTTATGATATTTGGTTCTATTC-AG
1 ATCATTTCTTTGAGTTTTGGTT-TGTCTAAGTCAGTTTATGATATTTGGTTCTA-TCAAG
*
431522 GTCATTTCTTTGAGTTTTGGTCTTGTCTAAG
1 ATCATTTCTTTGAGTTTTGGT-TTGTCTAAG
431553 CTATTTTTAG
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
58 2 0.03
59 69 0.93
60 3 0.04
ACGTcount: A:0.17, C:0.12, G:0.18, T:0.52
Consensus pattern (58 bp):
ATCATTTCTTTGAGTTTTGGTTTGTCTAAGTCAGTTTATGATATTTGGTTCTATCAAG
Found at i:431753 original size:30 final size:30
Alignment explanation
Indices: 431690--431763 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
431680 GATAGAATCA
* * *
431690 ATCTTTTCAACTAAAGGTTTTGTCTTAATC
1 ATCTTTTTAACTAAAGGTTTTGTCCTAAGC
431720 ATCTTTTTAACTAATAGGTTTTG-CCTAAGC
1 ATCTTTTTAACTAA-AGGTTTTGTCCTAAGC
*
431750 ATCTTCTTTTACTA
1 ATCTT-TTTAACTA
431764 CCATTATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 23 0.61
31 15 0.39
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (30 bp):
ATCTTTTTAACTAAAGGTTTTGTCCTAAGC
Found at i:432041 original size:95 final size:94
Alignment explanation
Indices: 431809--432058 Score: 265
Period size: 94 Copynumber: 2.6 Consensus size: 94
431799 AGTTTTGCCA
* * ** * **
431809 TGGTTATATTTTCAATTAATAGGTTTCACTCTAGTCATCTTCTTTGACTATCATGGTTT-TTCCT
1 TGGTCATATTTTCAACTAATAGGTTTCA-TCTAGTTGTCTTCTTTAACTATCATGGTTTCAACCT
*
431873 GGTCAATGTTTCTAACTAGAGGTTTCACCT
65 GGTCAATCTTTCTAACTAGAGGTTTCACCT
* ** * * *
431903 TGGTTATATTTTTTACTAATACGTTTCACCCTAGTTGTCTTCTTTAACTATCATAGTTTCAACCT
1 TGGTCATATTTTCAACTAATAGGTTTCA-TCTAGTTGTCTTCTTTAACTATCATGGTTTCAACC-
* *
431968 TGGTCAATCTTTTTAGCT-GAAGGTTTCATCC-
64 TGGTCAATCTTTCTAACTAG-AGGTTTCA-CCT
*
431999 TGGTCAT-TTTTCAACTAATAGGCTTCATCGTAGTTGTCTTCTTTAACTATCATGGTTTCA
1 TGGTCATATTTTCAACTAATAGGTTTCATC-TAGTTGTCTTCTTTAACTATCATGGTTTCA
432059 CACTAGTTAA
Statistics
Matches: 130, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
94 51 0.39
95 48 0.37
96 29 0.22
97 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.46
Consensus pattern (94 bp):
TGGTCATATTTTCAACTAATAGGTTTCATCTAGTTGTCTTCTTTAACTATCATGGTTTCAACCTG
GTCAATCTTTCTAACTAGAGGTTTCACCT
Found at i:432199 original size:30 final size:31
Alignment explanation
Indices: 432163--432220 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
432153 ATCCTTATAA
*
432163 ATCTTTTTGACTAA-ATATTTAGCCCTAGTT
1 ATCTTTTTGACTAATAGATTTAGCCCTAGTT
*
432193 ATCTTTTTGACTAATAGATTTTGCCCTA
1 ATCTTTTTGACTAATAGATTTAGCCCTA
432221 ATCATCTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (31 bp):
ATCTTTTTGACTAATAGATTTAGCCCTAGTT
Found at i:432200 original size:95 final size:95
Alignment explanation
Indices: 431811--432526 Score: 369
Period size: 95 Copynumber: 7.6 Consensus size: 95
431801 TTTTGCCATG
* * * * * * * *
431811 GTTATATTTTCAATTAATAGGTTTCACTCTAGTCATCTTCTTTGACTATCATGGTTT-TTCC-TG
1 GTTATCTTTTTAACTAATAGATTTCACCCTAGTCATCTTTTTTGACTATCATGGTTTCATCCTTA
* * * * *
431874 GTCAATGTTTCTAACTAGAGGTTTCA-CCTTG
66 GTCAAT-TTTTTGACTAAAGGTTT-AGCCCTA
* * ** * * * *
431905 GTTATATTTTTTACTAATACG-TTTCACCCTAGTTGTCTTCTTTAACTATCATAGTTTCAACCTT
1 GTTATCTTTTTAACTAATA-GATTTCACCCTAGTCATCTTTTTTGACTATCATGGTTTCATCCTT
* * * *
431969 GGTCAATCTTTTT-AGCTGAAGGTTTCA-TCCTG
65 AGTCAAT-TTTTTGA-CTAAAGGTTT-AGCCCTA
* * ** * * ** * *
432001 GTCAT-TTTTCAACTAATAGGCTTCATCGTAGTTGTCTTCTTTAACTATCATGGTTTCA-CAC-T
1 GTTATCTTTTTAACTAATAGATTTCACCCTAGTCATCTTTTTTGACTATCATGGTTTCATC-CTT
* ** * * *
432063 AGTTAATCTTTTCAACCAAAGGTTTTGCCAT-
65 AGTCAAT-TTTTTGACTAAAGGTTTAGCCCTA
* * * * * *
432094 GATCATTTTTTTGACTAATAGGTTTCACCTTAGTCATCTTTTTTGATTATCATGGTTTCATCCTT
1 G-TTATCTTTTTAACTAATAGATTTCACCCTAGTCATCTTTTTTGACTATCATGGTTTCATCCTT
* **
432159 A-TAAATCTTTTTGACTAAATATTTAGCCCTA
65 AGTCAAT-TTTTTGACTAAAGGTTTAGCCCTA
* ** * * * *
432190 GTTATCTTTTTGACTAATAGATTTTGCCCTAATCATCTTCTTTAACTATCATGGATTCA--CTCT
1 GTTATCTTTTTAACTAATAGATTTCACCCTAGTCATCTTTTTTGACTATCATGGTTTCATCCT-T
* *
432253 AGTCAATCTTTTCGAC-AGAAGGTTTCA-CCCTG
65 AGTCAAT-TTTTTGACTA-AAGGTTT-AGCCCTA
* * * * * *
432285 GTTAT-ATTTTAACTAAAAGGTTTCACCATAGTCATCTTTTTTG----TCATGGTTTCTTAC-TA
1 GTTATCTTTTTAACTAATAGATTTCACCCTAGTCATCTTTTTTGACTATCATGGTTTCATCCTTA
* *
432344 GTCAATTTTTTCGACTAAAGGTTTTGCCTTA
66 GTCAATTTTTT-GACTAAAGGTTTAGCCCTA
* ** * *
432375 GTTATCTTTTCAACTAATAGATTTTGCCCTAATCATCTTTTTTGACTATCATGGTTTCA-CCCTA
1 GTTATCTTTTTAACTAATAGATTTCACCCTAGTCATCTTTTTTGACTATCATGGTTTCATCCTTA
* * * * *
432439 ATTAATTTTTCTTACTAAAGGTTTCGCCTTA
66 GTCAATTTTT-TGACTAAAGGTTTAGCCCTA
* * * *** * *
432470 ATCATCTTTTCAACTAATAGATTTCATTGTAGTCATCTTCTTTGACTATCATAGTTT
1 GTTATCTTTTTAACTAATAGATTTCACCCTAGTCATCTTTTTTGACTATCATGGTTT
432527 TGGCTTAGTT
Statistics
Matches: 488, Mismatches: 105, Indels: 57
0.75 0.16 0.09
Matches are distributed among these distances:
89 4 0.01
90 35 0.07
91 31 0.06
92 1 0.00
93 3 0.01
94 106 0.22
95 273 0.56
96 35 0.07
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (95 bp):
GTTATCTTTTTAACTAATAGATTTCACCCTAGTCATCTTTTTTGACTATCATGGTTTCATCCTTA
GTCAATTTTTTGACTAAAGGTTTAGCCCTA
Found at i:432462 original size:185 final size:186
Alignment explanation
Indices: 432035--432463 Score: 499
Period size: 185 Copynumber: 2.3 Consensus size: 186
432025 ATCGTAGTTG
**
432035 TCTTCTTTAACTATCATGGTTTCACACTAGTTAATCTTTTCAACCAAAGGTTTTGCCATGATCAT
1 TCTTCTTTAACTATCATGGTTTCACACTAGTTAATCTTTTCAA-CAAAGGTTTCACCATGATCAT
* * * * *
432100 TTTTTTGACTAATAGGTTTCACCTTAGTCATCTTTTTTGATTATCATGGTTTCATCCTTATAAAT
65 TATTTTAACTAAAAGGTTTCACCATAGTCATCTTTTTTG---ATCATGGTTTCATACTTATAAAT
* **
432165 CTTTTTGACTAAATATTTAGCCCTAGTTATCTTTTTGACTAATAGATTTTGCCCTAATCA
127 CTTTTTGACTAAAGATTTAGCCCTAGTTATCTTTTCAACTAATAGATTTTGCCCTAATCA
* * * * * * *
432225 TCTTCTTTAACTATCATGGATTCACTCTAGTCAATCTTTTCGACAGAAGGTTTCACCCTGGTTA-
1 TCTTCTTTAACTATCATGGTTTCACACTAGTTAATCTTTTCAACA-AAGGTTTCACCATGATCAT
* *
432289 TATTTTAACTAAAAGGTTTCACCATAGTCATCTTTTTTG-TCATGGTTTCTTAC-TAGTCAAT-T
65 TATTTTAACTAAAAGGTTTCACCATAGTCATCTTTTTTGATCATGGTTTCATACTTA-TAAATCT
* * *
432351 TTTTCGACTAAAGGTTTTGCCTTAGTTATCTTTTCAACTAATAGATTTTGCCCTAATCA
129 TTTT-GACTAAAGATTTAGCCCTAGTTATCTTTTCAACTAATAGATTTTGCCCTAATCA
* * * * *
432410 TCTTTTTTGACTATCATGGTTTCACCCTAATTAAT-TTTTCTTACTAAAGGTTTC
1 TCTTCTTTAACTATCATGGTTTCACACTAGTTAATCTTTTC-AAC-AAAGGTTTC
432464 GCCTTAATCA
Statistics
Matches: 205, Mismatches: 29, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
184 12 0.06
185 103 0.50
186 1 0.00
189 37 0.18
190 52 0.25
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (186 bp):
TCTTCTTTAACTATCATGGTTTCACACTAGTTAATCTTTTCAACAAAGGTTTCACCATGATCATT
ATTTTAACTAAAAGGTTTCACCATAGTCATCTTTTTTGATCATGGTTTCATACTTATAAATCTTT
TTGACTAAAGATTTAGCCCTAGTTATCTTTTCAACTAATAGATTTTGCCCTAATCA
Found at i:432539 original size:95 final size:95
Alignment explanation
Indices: 431689--432558 Score: 321
Period size: 95 Copynumber: 9.2 Consensus size: 95
431679 AGATAGAATC
* * * * ** *
431689 AATCTTTTCAACTAAAGGTTTTGTCTTAATCATCTTTTTAACTAATAGGTTT-TGCCTAAGCATC
1 AATCTTTTCAACTAAAGGTTTCGCCTTAATCATCTTTTCAACTAATAGATTTCACCCTAATCATC
* * ** ***
431753 TTCTTTTACTACCATTA-TTTTGCCCTAGCC
66 TTCTTTGACTATCA-TAGTTTCACCCTAATT
* * * * ** * * * * * *
431783 AATCTTTTTAGA-TAAAAGTTTTGCCATGGTTATATTTTCAATTAATAGGTTTCACTCTAGTCAT
1 AATCTTTTCA-ACTAAAGGTTTCGCCTTAATCATCTTTTCAACTAATAGATTTCACCCTAATCAT
* ** ** *
431847 CTTCTTTGACTATCATGGTTT-TTCCTGGTC
65 CTTCTTTGACTATCATAGTTTCACCCTAATT
* * * ** * * ** * **
431877 AAT-GTTTCTAACTAGAGGTTTCACCTTGGTTATATTTTTTACTAATACG-TTTCACCCTAGTTG
1 AATCTTTTC-AACTAAAGGTTTCGCCTTAATCATCTTTTCAACTAATA-GATTTCACCCTAATCA
* * ** *
431940 TCTTCTTTAACTATCATAGTTTCAACCTTGGTC
64 TCTTCTTTGACTATCATAGTTTC-ACCCTAATT
* * * * ** ** * * * **
431973 AATCTTTTTAGCTGAAGGTTTCATCC-TGGTCAT-TTTTCAACTAATAGGCTTCATCGTAGTTGT
1 AATCTTTTCAACTAAAGGTTTC-GCCTTAATCATCTTTTCAACTAATAGATTTCACCCTAATCAT
* * * *
432036 CTTCTTTAACTATCATGGTTTCACACTAGTT
65 CTTCTTTGACTATCATAGTTTCACCCTAATT
* * * * * ** * * *
432067 AATCTTTTCAACCAAAGGTTTTGCCATGATCATTTTTTTGACTAATAGGTTTCACCTTAGTCATC
1 AATCTTTTCAACTAAAGGTTTCGCCTTAATCATCTTTTCAACTAATAGATTTCACCCTAATCATC
* * * * * *
432132 TTTTTTGATTATCATGGTTTCATCCTTATA
66 TTCTTTGACTATCATAGTTTCACCCTAATT
** ** * * * * ** **
432162 AATCTTTTTGACTAAATATTTAGCCCTAGTTATCTTTTTGACTAATAGATTTTGCCCTAATCATC
1 AATCTTTTCAACTAAAGGTTTCGCCTTAATCATCTTTTCAACTAATAGATTTCACCCTAATCATC
* * * * * *
432227 TTCTTTAACTATCATGGATTCACTCTAGTC
66 TTCTTTGACTATCATAGTTTCACCCTAATT
* * * ** * * * * * *
432257 AATCTTTTCGAC-AGAAGGTTTCACCCTGGTTATATTTT-AACTAAAAGGTTTCACCATAGTCAT
1 AATCTTTTCAACTA-AAGGTTTCGCCTTAATCATCTTTTCAACTAATAGATTTCACCCTAATCAT
* * *** * *
432320 CTT-TTT---TGTCATGGTTTCTTACTAGTC
65 CTTCTTTGACTATCATAGTTTCACCCTAATT
* * * * * **
432347 AATTTTTTCGACTAAAGGTTTTGCCTTAGTTATCTTTTCAACTAATAGATTTTGCCCTAATCATC
1 AATCTTTTCAACTAAAGGTTTCGCCTTAATCATCTTTTCAACTAATAGATTTCACCCTAATCATC
* *
432412 TTTTTTGACTATCATGGTTTCACCCTAATT
66 TTCTTTGACTATCATAGTTTCACCCTAATT
* *** *
432442 AAT-TTTTCTTACTAAAGGTTTCGCCTTAATCATCTTTTCAACTAATAGATTTCATTGTAGTCAT
1 AATCTTTTC-AACTAAAGGTTTCGCCTTAATCATCTTTTCAACTAATAGATTTCACCCTAATCAT
*** * *
432506 CTTCTTTGACTATCATAGTTTTGGCTTAGTT
65 CTTCTTTGACTATCATAGTTTCACCCTAATT
*
432537 AATCTTTTCAACTAAAAGTTTC
1 AATCTTTTCAACTAAAGGTTTC
432559 ACTCTGATTA
Statistics
Matches: 594, Mismatches: 160, Indels: 43
0.75 0.20 0.05
Matches are distributed among these distances:
90 46 0.08
91 23 0.04
92 3 0.01
93 9 0.02
94 164 0.28
95 314 0.53
96 30 0.05
97 5 0.01
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (95 bp):
AATCTTTTCAACTAAAGGTTTCGCCTTAATCATCTTTTCAACTAATAGATTTCACCCTAATCATC
TTCTTTGACTATCATAGTTTCACCCTAATT
Found at i:439797 original size:17 final size:17
Alignment explanation
Indices: 439754--439799 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
439744 CTTATTTTTG
*
439754 TCTT-AATAAATATTTA
1 TCTTAAATAAATATATA
*
439770 T-TCAAATTAAATATATA
1 TCTTAAA-TAAATATATA
439787 TCTTAAATAAATA
1 TCTTAAATAAATA
439800 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 1 0.04
16 3 0.12
17 16 0.67
18 4 0.17
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (17 bp):
TCTTAAATAAATATATA
Found at i:440870 original size:13 final size:13
Alignment explanation
Indices: 440852--440876 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
440842 CATTATGCTT
440852 TGTATCGATACAA
1 TGTATCGATACAA
440865 TGTATCGATACA
1 TGTATCGATACA
440877 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:440873 original size:33 final size:32
Alignment explanation
Indices: 440831--440895 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
440821 ACACACTCAG
*
440831 ATGTATCGATACAT-TATGCTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
440864 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTTCATTGTATCGATACA
440896 TGGACAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:440889 original size:19 final size:20
Alignment explanation
Indices: 440861--440917 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
440851 TTGTATCGAT
*
440861 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
440880 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
*
440899 ACAATTGCATCGATACATG
1 ACAATTGTATCGATACATG
440918 AAACTAGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.50
20 15 0.47
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:440910 original size:20 final size:19
Alignment explanation
Indices: 440868--440917 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
440858 GATACAATGT
** *
440868 ATCGATACATGTTCATTGT
1 ATCGATACATGGACATTGC
440887 ATCGATACATGGACAATTGC
1 ATCGATACATGGAC-ATTGC
440907 ATCGATACATG
1 ATCGATACATG
440918 AAACTAGCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (19 bp):
ATCGATACATGGACATTGC
Found at i:440981 original size:13 final size:13
Alignment explanation
Indices: 440963--441014 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
440953 GATACATGGC
440963 ACATTGTATCGAT
1 ACATTGTATCGAT
440976 ACATTGTATCGAT
1 ACATTGTATCGAT
440989 ACA-TG-AT-G--
1 ACATTGTATCGAT
440997 A-ATTGTATCGAT
1 ACATTGTATCGAT
441009 ACATTG
1 ACATTG
441015 CTTCACATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:440988 original size:33 final size:32
Alignment explanation
Indices: 440946--441014 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 32
440936 GTACCACTGT
440946 TTGTATCGATACATG-GCACATTGTATCGATACA
1 TTGTATCGATACATGAG-A-ATTGTATCGATACA
440979 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGA-GAATTGTATCGATACA
441012 TTG
1 TTG
441015 CTTCACATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 32 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACATGAGAATTGTATCGATACA
Found at i:448833 original size:20 final size:20
Alignment explanation
Indices: 448808--448871 Score: 119
Period size: 20 Copynumber: 3.2 Consensus size: 20
448798 CCAGATGTAT
448808 ACATTATGCTTTGTATCGAC
1 ACATTATGCTTTGTATCGAC
448828 ACATTATGCTTTGTATCGAC
1 ACATTATGCTTTGTATCGAC
*
448848 ACATTATGCTTTGTATCGAT
1 ACATTATGCTTTGTATCGAC
448868 ACAT
1 ACAT
448872 GTTCATTGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (20 bp):
ACATTATGCTTTGTATCGAC
Found at i:448882 original size:19 final size:19
Alignment explanation
Indices: 448858--448930 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
448848 ACATTATGCT
448858 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGTTCA
*
448877 TTGTATCGATATATGTTCA
1 TTGTATCGATACATGTTCA
**
448896 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGTTC-A
*
448916 TTGTATTGATACATG
1 TTGTATCGATACATG
448931 AAACTGGCAG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 33 0.69
20 15 0.31
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (19 bp):
TTGTATCGATACATGTTCA
Found at i:448997 original size:33 final size:32
Alignment explanation
Indices: 448960--449024 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
448950 TACCACTATT
448960 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
*
448993 TGTATTGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGA-GAATTGTATCGATACA
449025 TTACTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:450724 original size:97 final size:97
Alignment explanation
Indices: 450588--450795 Score: 310
Period size: 97 Copynumber: 2.1 Consensus size: 97
450578 ATTGAAAAAT
* * * * * *
450588 GGGGTTGGAGTATCTCTTCGGAGGGATGGGGTTGTAGTGTCCCCAATGATGATAATTTGAGTGAG
1 GGGGTTGGAGTATCTCCTCGAAGGAATGGGGTTGGAGTGTCCCCAATGATGACAATTTAAGTGAG
450653 AATAAGATTTAAACTTTGATGTATTTAAAAGC
66 AATAAGATTTAAACTTTGATGTATTTAAAAGC
*
450685 GGGGTTGGAGTAT-TACCTCGAAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGA
1 GGGGTTGGAGTATCT-CCTCGAAGGAATGGGGTTGGAGTGTCCCCAATGATGACAATTTAAGTGA
* *
450749 GAATAAGATTTAAACTTTGATGTGTTTAAAAGT
65 GAATAAGATTTAAACTTTGATGTATTTAAAAGC
*
450782 GGGGTTAGAGTATC
1 GGGGTTGGAGTATC
450796 CCCGATAAGT
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
96 1 0.01
97 98 0.99
ACGTcount: A:0.28, C:0.09, G:0.31, T:0.32
Consensus pattern (97 bp):
GGGGTTGGAGTATCTCCTCGAAGGAATGGGGTTGGAGTGTCCCCAATGATGACAATTTAAGTGAG
AATAAGATTTAAACTTTGATGTATTTAAAAGC
Found at i:452696 original size:61 final size:61
Alignment explanation
Indices: 452574--453039 Score: 510
Period size: 61 Copynumber: 7.5 Consensus size: 61
452564 TCTTCAAATC
*
452574 TCTTTTC-TCAAAGTCCACAACTCAGTGGCATATCTTTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGC--ATCTTTTCTCAAAGTCCACGACTCAGTGGCA
* * * *
452636 TCTTTTCTTTAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTTAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGCA
* *
452697 TCTTTTCTTCAAAGTCCACGACTTAGTGGCAATCTCTTCTCAAAG-CTCACGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGC-ATCTTTTCTCAAAGTC-CACGACTCAGTGGCA
* * * * *
452759 TCTTGTC-CCAAAGTCCACAACTCAGTGGCATCTTTTTTCAAAGTCCACAACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGCA
* * *
452819 TCCTTTTCTTCCAAGTCCACGACTTAGTGGCATCTTTTTTCTTCAAAGTCCACGACTTAGTGGCA
1 T-CTTTTCTTCAAAGTCCACGACTCAGTGGCATC--TTTTC-TCAAAGTCCACGACTCAGTGGCA
* * * *
452884 TCTCTTC-CCAAGGTCTACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTC-TCAAAGTCCACGACTCAGTGGC-A
* * * * * * * *
452946 TCTCTT-TTCAAAATCCACGACTCGGTGGCATCTTTTCCCAAAGTCCATGACTCTGCGGTA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGCA
* * *
453006 CCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCA
1 TC-TTTTC--TTCAAAGTCCACGACTCAGTGGCA
453040 CCCTTTTAAG
Statistics
Matches: 343, Mismatches: 46, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
60 29 0.08
61 129 0.38
62 93 0.27
63 40 0.12
64 30 0.09
65 22 0.06
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (61 bp):
TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:452748 original size:92 final size:91
Alignment explanation
Indices: 452582--453039 Score: 508
Period size: 92 Copynumber: 4.9 Consensus size: 91
452572 TCTCTTTTCT
* *
452582 CAAAGTCCACAACTCAGTGGCATATCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTTA
1 CAAAGTCCACGACTCAGTGGC--ATCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCA
452647 AAGTCCACGACTCAGTGGCATCTCTTCC
64 AAGTCCACGACTCAGTGGCATCTCTTCC
* * *
452675 CAAAGTCCACGACTTAGTGGCATCTTTTCTTCAAAGTCCACGACTTAGTGGCAATCTCTTC-TCA
1 CAAAGTCCACGACTCAGTGGCATCTTTTC-TCAAAGTCCACGACTCAGTGGC-ATCTTTTCTTCA
452739 AAG-CTCACGACTCAGTGGCATCT-TGTCC
64 AAGTC-CACGACTCAGTGGCATCTCT-TCC
* * * *
452767 CAAAGTCCACAACTCAGTGGCATCTTTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTCCA
1 CAAAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGCAT-CTTTTCTTCAA
* * *
452832 AGTCCACGACTTAGTGGCATCTTTTTTCTT
65 AGTCCACGACTCAGTGGCATC--TCTTC-C
* * * * *
452862 CAAAGTCCACGACTTAGTGGCATCTCTTCCCAAGGTCTACGACTCAGTGGCATCTTTTCTTCAAA
1 CAAAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAA
**
452927 GTCCACGACTCAGTGGCAATCTCTTTT
66 GTCCACGACTCAGTGGC-ATCTCTTCC
* * * * * * * *
452954 CAAAATCCACGACTCGGTGGCATCTTTTCCCAAAGTCCATGACTCTGCGGTACCTTTTTCTTTTC
1 CAAAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGCATC-TTTTC--TTC
* *
453019 AAAGTCCACAACTCTGTGGCA
63 AAAGTCCACGACTCAGTGGCA
453040 CCCTTTTAAG
Statistics
Matches: 311, Mismatches: 39, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
90 2 0.01
91 35 0.11
92 138 0.44
93 35 0.11
94 31 0.10
95 70 0.23
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (91 bp):
CAAAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAA
GTCCACGACTCAGTGGCATCTCTTCC
Found at i:452967 original size:217 final size:215
Alignment explanation
Indices: 452574--453046 Score: 662
Period size: 217 Copynumber: 2.2 Consensus size: 215
452564 TCTTCAAATC
* *
452574 TCTTTTCTCAAAGTCCACAACTCAGTGGCATATCTTTTCTCAAAGTCCACGACTCAGTGGCATCT
1 TCTTTTTTCAAAGTCCACAACTCAGTGGCAT-CCTTTTCTCAAAGTCCACGACTCAGTGGCATCT
* *
452639 TTTCTTTAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTTAGTGGCATCTTTTC
65 TTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTTTC
*
452704 TTCAAAGTCCACGACTTAGTGGCAATCTCTTCTCAAAGCTCACGACTCAGTGGCATCTTGTCCCA
130 TTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCTCACGACTCAGTGGCATCTTGTCCCA
*
452769 AAGTCCACAACTCAGTGG-CA
195 AAGTCCACAACTCAGCGGACA
* *
452789 TCTTTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTCCAAGTCCACGACTTAGTGGCATCT
1 TCTTTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTC-TCAAAGTCCACGACTCAGTGGCATC-
* * *
452854 TTTTTCTTCAAAGTCCACGACTTAGTGGCATCTCTTCCCAAGGTCTACGACTCAGTGGCATCTTT
64 -TTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTT
* * * *
452919 TCTTCAAAGTCCACGACTCAGTGGCAATCTCTTTTCAAA-ATCCACGACTCGGTGGCATCTTTTC
128 TCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCT-CACGACTCAGTGGCATCTTGTC
** * *
452983 CCAAAGTCCATGACTCTGCGGTACCT
192 CCAAAGTCCACAACTCAGCGG-A-CA
* * *
453009 TTTTCTTTTCAAAGTCCACAACTCTGTGGCACCCTTTT
1 TCTT-TTTTCAAAGTCCACAACTCAGTGGCATCCTTTT
453047 AAGTCCACAA
Statistics
Matches: 228, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
214 6 0.03
215 53 0.23
216 1 0.00
217 133 0.58
220 4 0.02
221 31 0.14
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (215 bp):
TCTTTTTTCAAAGTCCACAACTCAGTGGCATCCTTTTCTCAAAGTCCACGACTCAGTGGCATCTT
TTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCT
TCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCTCACGACTCAGTGGCATCTTGTCCCAA
AGTCCACAACTCAGCGGACA
Found at i:453094 original size:95 final size:92
Alignment explanation
Indices: 452995--453298 Score: 313
Period size: 95 Copynumber: 3.2 Consensus size: 92
452985 AAAGTCCATG
* * * *
452995 ACTCTGCGGTACCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAATTC
1 ACTCTGTGGCACCTTTTTCTTTT--AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTC
*
453060 CATGGCACCTTTTTCTTTTTAAAGCCCACA
64 CATGGCACCTTTTTCCTTTT-AAGCCCACA
*
453090 ACTCTGTAGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTC
1 ACTCTGTGGCAC-CTTTTT-CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTC
* * * *
453155 CGTGGCATCTTTTTCCTTTTAAGTCTACA
64 CATGGCACCTTTTTCCTTTTAAGCCCACA
* * * *
453184 ACTCTGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCATGGCACCTTGTCTTTTTAAGTTCACG
1 ACTCTGTGGCACCTT-TTTCTTTTAAGTCCACAACTCCGTGGCACC----C-TTTTAAGTCCACA
* * * *
453249 ACTCCGTGGCATCCCTTTTTCC-TGTAAGTCCATA
60 ACTCCATGGCA--CCTTTTTCCTTTTAAGCCCACA
*
453283 ACTCCGTGGCACCTTT
1 ACTCTGTGGCACCTTT
453299 AAGTCCAACA
Statistics
Matches: 179, Mismatches: 20, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
93 29 0.16
94 20 0.11
95 64 0.36
96 6 0.03
97 6 0.03
98 23 0.13
99 23 0.13
100 8 0.04
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (92 bp):
ACTCTGTGGCACCTTTTTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCA
TGGCACCTTTTTCCTTTTAAGCCCACA
Done.