Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001585.1 Hibiscus syriacus cultivar Beakdansim tig00003164_pilon, whole genome shotgun sequence
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: 161413
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Found at i:752 original size:14 final size:14
Alignment explanation
Indices: 733--766 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
723 TTTATTTATT
733 TAATTTCATTCCTC
1 TAATTTCATTCCTC
* *
747 TAATTTCATTGCTT
1 TAATTTCATTCCTC
761 TAATTT
1 TAATTT
767 TCTATTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.03, T:0.56
Consensus pattern (14 bp):
TAATTTCATTCCTC
Found at i:2450 original size:251 final size:245
Alignment explanation
Indices: 2013--2509 Score: 805
Period size: 251 Copynumber: 2.0 Consensus size: 245
2003 CCAAGAATCG
* * * *
2013 TTTGAATTGAATAGTTATTTGGAATTTTGGGATCAAATGTGATCATATCCTGTCAATATGTTATA
1 TTTGAATTGAATAGTCATTTGGAATTTTGAGATCAAATGTGATCATATCCAGTCAAAATGTTATA
* * * ** *
2078 TGTCCGAATCCGAATGATTGATATTTTTGGAGGTACAAGAAAGGTGTTAAGTTTTAAACATATGC
66 TATCCGAATCCGAATGAATGATATTTTTGGAGGTACAACAAACATGATAAGTTTTAAACATATGC
* *
2143 CTCTAGTTAAAATAAGGATTCTTTTATCCTAAATAGTCCAGAGAATTATTACAAATATACCCTTA
131 CTCTAGTTAAAATAAGGATTCTTTTATCCTAAACAGTACAGAGAATTATTACAAATATACCCTTA
2208 TATAATATAGTTAGGGTTTTTAAAATTTTATCCACTTTTCCTCTATATCT
196 TATAATATAGTTAGGGTTTTTAAAATTTTATCCACTTTTCCTCTATATCT
*
2258 TTTGAATTGTATAGTCATTTGGAATTTTGAGATCAAATGTGATCATATCCAGTCAAAATGTTATA
1 TTTGAATTGAATAGTCATTTGGAATTTTGAGATCAAATGTGATCATATCCAGTCAAAATGTTATA
*
2323 TATCCGAATCCGAATCCGAATGATTTATGTTTCTGGAGGTACAACAAACATGATAAGTTTTCAAC
66 TATCCGAATCCGAAT--GAATGA--TAT-TTT-TGGAGGTACAACAAACATGATAAGTTTTAAAC
2388 ATATGCCTCTAGTTAAAATAAGGATTCTTTTATCCTAAACAGTACAGAGAATTATTACAAATATA
125 ATATGCCTCTAGTTAAAATAAGGATTCTTTTATCCTAAACAGTACAGAGAATTATTACAAATATA
*
2453 CCCTTATATAATATAGTTAGGGTTTTTAAAATTTTCTCCACTTTTCCTCTATATCT
190 CCCTTATATAATATAGTTAGGGTTTTTAAAATTTTATCCACTTTTCCTCTATATCT
2509 T
1 T
2510 AATTTTACTT
Statistics
Matches: 231, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
245 74 0.32
247 5 0.02
249 3 0.01
250 3 0.01
251 146 0.63
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (245 bp):
TTTGAATTGAATAGTCATTTGGAATTTTGAGATCAAATGTGATCATATCCAGTCAAAATGTTATA
TATCCGAATCCGAATGAATGATATTTTTGGAGGTACAACAAACATGATAAGTTTTAAACATATGC
CTCTAGTTAAAATAAGGATTCTTTTATCCTAAACAGTACAGAGAATTATTACAAATATACCCTTA
TATAATATAGTTAGGGTTTTTAAAATTTTATCCACTTTTCCTCTATATCT
Found at i:8966 original size:24 final size:24
Alignment explanation
Indices: 8938--8985 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8928 GAGCAATAAT
*
8938 CATCCATGCACGAGCACTAGCAAC
1 CATCCATGCACGAGCACAAGCAAC
8962 CATCCATGCACGAGCACAAGCAAC
1 CATCCATGCACGAGCACAAGCAAC
8986 TGCATGCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.38, G:0.17, T:0.10
Consensus pattern (24 bp):
CATCCATGCACGAGCACAAGCAAC
Found at i:10772 original size:16 final size:16
Alignment explanation
Indices: 10751--10783 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10741 TAATTTCAAA
*
10751 TTGAATCATTTTGAGT
1 TTGAATAATTTTGAGT
10767 TTGAATAATTTTGAGT
1 TTGAATAATTTTGAGT
10783 T
1 T
10784 ATCATCTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (16 bp):
TTGAATAATTTTGAGT
Found at i:14194 original size:22 final size:23
Alignment explanation
Indices: 14144--14195 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
14134 CACCGTATAT
*
14144 ATAAAT-ATATAAATATTTAAAA
1 ATAAATAATAAAAATATTTAAAA
*
14166 ATCAAATAATAAAAATATTT-TAA
1 AT-AAATAATAAAAATATTTAAAA
14189 ATAAATA
1 ATAAATA
14196 TTATTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 7 0.27
23 8 0.31
24 11 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAAATAATAAAAATATTTAAAA
Found at i:19345 original size:12 final size:12
Alignment explanation
Indices: 19328--19352 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19318 ATACGCGCCT
19328 ACTATATATAAA
1 ACTATATATAAA
19340 ACTATATATAAA
1 ACTATATATAAA
19352 A
1 A
19353 TGTTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
ACTATATATAAA
Found at i:21524 original size:131 final size:129
Alignment explanation
Indices: 21261--21606 Score: 369
Period size: 131 Copynumber: 2.6 Consensus size: 129
21251 GGATCTATTC
* * * * * *
21261 TGCTGCTTTTCAGGGTAGATCAGATTTGGAGACTTTGATTCACTTTACTGCTCTTTAGGGAAAAT
1 TGCTGCTCTTCAAGGTAGATCAGATCTGGAAACTTTGATTCAC-TT-CTGCTCTTCAGGGAAGAT
* * **
21326 TGAATCGGTGGTTGATTTGCTTCACTGCTCGTCATGGAAGATTAAATTTAGAAAGAAAAAAAAGA
64 TGAATCGG-GGTTGATTTGCTTCACTGATAGTCAAAGAAGATTAAATTTAGAAAGAAAAAAAAGA
21391 TA
128 TA
*
21393 TGCTCCGCTACTCGTCAAGGTAGATCAGATCTGGAAACATTGATTCAC-T-T-CTCTTCAGGGAA
1 TGCT--GCT-CT--TCAAGGTAGATCAGATCTGGAAACTTTGATTCACTTCTGCTCTTCAGGGAA
* * * * * *
21455 GATTAAATCGGGGTTGATTTGCTTTACTGATATTTAAAGAATATTAAATTT-GAAA-AAAAGGAT
61 GATTGAATCGGGGTTGATTTGCTTCACTGATAGTCAAAGAAGATTAAATTTAGAAAGAAAA--AA
*
21518 ATGATA
124 AAGATA
*
21524 TGCTGCTCTTCAGGGTAGATCAGATCTGGAAACTTTGATTCACTTCACTGCTCTTCAGGGAAGAT
1 TGCTGCTCTTCAAGGTAGATCAGATCTGGAAACTTTGATTCACTT--CTGCTCTTCAGGGAAGAT
*
21589 TGAATCGAGGTTGATTTG
64 TGAATCGGGGTTGATTTG
21607 TTCCATTGCT
Statistics
Matches: 180, Mismatches: 22, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
126 32 0.18
127 1 0.01
128 2 0.01
129 7 0.04
130 5 0.03
131 73 0.41
132 24 0.13
133 1 0.01
134 3 0.02
135 2 0.01
137 30 0.17
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (129 bp):
TGCTGCTCTTCAAGGTAGATCAGATCTGGAAACTTTGATTCACTTCTGCTCTTCAGGGAAGATTG
AATCGGGGTTGATTTGCTTCACTGATAGTCAAAGAAGATTAAATTTAGAAAGAAAAAAAAGATA
Found at i:21593 original size:263 final size:265
Alignment explanation
Indices: 21114--21606 Score: 647
Period size: 263 Copynumber: 1.9 Consensus size: 265
21104 ATCAAATTTG
* * * *
21114 AAAAAAAGTATATGCTCTGCTACTCTTCAGGGTAGATCATATATGAAAACTTCGATTCACTTCAC
1 AAAAAAAGTATATGCTCCGCTACTCGTCAAGGTAGATCAGATATGAAAACTTCGATTCACTT-AC
* * ** * **
21179 TATTTTCAGGGAAGATTGAATCGAGATAGATTTGTTCTACTTCTCTTCAGGGAATATTAAATTTG
65 -ATCTTCAGGGAAGATTAAATCGAGATAGATTTGTTCTACTGATATTCAAAGAATATTAAATTTG
* * * * * * *
21244 AAAAAAGGGATCTATTCTGCTGCTTTTCAGGGTAGATCAGATTTGGAGACTTTGATTCACTTTAC
129 AAAAAAAGGATATATTATGCTGCTCTTCAGGGTAGATCAGATCTGGAAACTTTGATTCACTTCAC
* *
21309 TGCTCTTTAGGGAAAATTGAATCGGTGGTTGATTTGCTTCACTGCTCGTCATGGAAGATTAAATT
194 TGCTCTTCAGGGAAAATTGAATC-GAGGTTGATTTGCTTCACTGCTCGTCATGGAAGATTAAATT
21374 TAGAAAGA
258 TAGAAAGA
* *
21382 AAAAAAAG-ATATGCTCCGCTACTCGTCAAGGTAGATCAGATCTGGAAACATT-GATTCACTT-C
1 AAAAAAAGTATATGCTCCGCTACTCGTCAAGGTAGATCAGATATGAAAAC-TTCGATTCACTTAC
* * * *
21444 -TCTTCAGGGAAGATTAAATCGGGGTTGATTTGCTT-TACTGATATTTAAAGAATATTAAATTTG
65 ATCTTCAGGGAAGATTAAATCGAGATAGATTTG-TTCTACTGATATTCAAAGAATATTAAATTTG
21507 AAAAAAAGGATATGA-TATGCTGCTCTTCAGGGTAGATCAGATCTGGAAACTTTGATTCACTTCA
129 AAAAAAAGGATAT-ATTATGCTGCTCTTCAGGGTAGATCAGATCTGGAAACTTTGATTCACTTCA
*
21571 CTGCTCTTCAGGGAAGATTGAATCGAGGTTGATTTG
193 CTGCTCTTCAGGGAAAATTGAATCGAGGTTGATTTG
21607 TTCCATTGCT
Statistics
Matches: 195, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
262 11 0.06
263 126 0.65
264 3 0.02
265 1 0.01
267 44 0.23
268 10 0.05
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (265 bp):
AAAAAAAGTATATGCTCCGCTACTCGTCAAGGTAGATCAGATATGAAAACTTCGATTCACTTACA
TCTTCAGGGAAGATTAAATCGAGATAGATTTGTTCTACTGATATTCAAAGAATATTAAATTTGAA
AAAAAGGATATATTATGCTGCTCTTCAGGGTAGATCAGATCTGGAAACTTTGATTCACTTCACTG
CTCTTCAGGGAAAATTGAATCGAGGTTGATTTGCTTCACTGCTCGTCATGGAAGATTAAATTTAG
AAAGA
Found at i:22132 original size:38 final size:39
Alignment explanation
Indices: 22080--22260 Score: 147
Period size: 38 Copynumber: 4.7 Consensus size: 39
22070 AAATAAAGTT
* * **
22080 GGTTTCTAGAGAAACAATCTTATGAAAGA-CAAGGCTGA
1 GGTTTCTAGGGAAACAATCTTAAGAAAGACCAAGATTGA
* * *
22118 GGTTTCTAGGGAAACGATCTTAAGAAA-ATCAAGAATGA
1 GGTTTCTAGGGAAACAATCTTAAGAAAGACCAAGATTGA
* * * *
22156 CGTTCCTTGGGAAACAATCTTTAGAAAGACCAA-ATTGA
1 GGTTTCTAGGGAAACAATCTTAAGAAAGACCAAGATTGA
* * * * * * * *
22194 GTTTTCT-CGGATACAAGTCCTAAGAATG-TCATGGTTGA
1 GGTTTCTAGGGAAACAA-TCTTAAGAAAGACCAAGATTGA
22232 GGTTTCTAGGGAAACAATCTTAAGAAAGA
1 GGTTTCTAGGGAAACAATCTTAAGAAAGA
22261 TAAAATGATT
Statistics
Matches: 109, Mismatches: 28, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
37 10 0.09
38 88 0.81
39 11 0.10
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (39 bp):
GGTTTCTAGGGAAACAATCTTAAGAAAGACCAAGATTGA
Found at i:22784 original size:45 final size:45
Alignment explanation
Indices: 22719--23311 Score: 591
Period size: 45 Copynumber: 13.2 Consensus size: 45
22709 CGAGAAATTT
* * *
22719 AAGTCAAGAATGACATCACTAAAAGGTTGACTCCTTTTCGCGAGA
1 AAGTCAAGAATGACAACACTAAAAGGTTGACTCCTCTTCACGAGA
* * * * *
22764 AAGTCAAGAAGGACAACACTAAAAGATCGACTTCTCTTCACGATA
1 AAGTCAAGAATGACAACACTAAAAGGTTGACTCCTCTTCACGAGA
* * * *
22809 AAGTCAAGAATAACATCACTAAAAGGTTGACTTCTCTTCATGAGA
1 AAGTCAAGAATGACAACACTAAAAGGTTGACTCCTCTTCACGAGA
* * * ***
22854 AAGTCAAGAAGGACAACACTAAAA-GATCAGCTCCTCTTTGTGAGA
1 AAGTCAAGAATGACAACACTAAAAGGTTGA-CTCCTCTTCACGAGA
* * * **
22899 AAGTCAATAATAACATCACTAAAAGGTTGACTCCTCTTCGTGAGA
1 AAGTCAAGAATGACAACACTAAAAGGTTGACTCCTCTTCACGAGA
* * * * * ***
22944 AAGTCAAGCATCACATCACTAAAAGGTTAATTCCTCTTTGTGAGA
1 AAGTCAAGAATGACAACACTAAAAGGTTGACTCCTCTTCACGAGA
* * * * * *
22989 AAGTTAAGTAGGACAACACTAAATGATGGACTCCTCTTCACGAGA
1 AAGTCAAGAATGACAACACTAAAAGGTTGACTCCTCTTCACGAGA
* * *
23034 AAATCAAGAATGACAACACTAAATA-ATTGACTCATCTTCACGAGA
1 AAGTCAAGAATGACAACACTAAA-AGGTTGACTCCTCTTCACGAGA
* * * * *
23079 AAGTCAATAATGACAACACTAAAAGATTTAACTCCTCTTCATGAAA
1 AAGTCAAGAATGACAACACTAAAAG-GTTGACTCCTCTTCACGAGA
* * * *
23125 AATTCAAGAATGAAAACAC-CAAAGATTGACTCCTCTTCACGAGA
1 AAGTCAAGAATGACAACACTAAAAGGTTGACTCCTCTTCACGAGA
*
23169 AAGTC-AGAAAGAACAACACTAAAAGGTTGACTCCTCTTCACGAGA
1 AAGTCAAGAATG-ACAACACTAAAAGGTTGACTCCTCTTCACGAGA
* * *
23214 AAGTCAAGAATGACAACACTAAAAGGCTGACTCATCTTCATGAGA
1 AAGTCAAGAATGACAACACTAAAAGGTTGACTCCTCTTCACGAGA
* * * **
23259 AAGTCAAGAATAACATCACTAAAAGATTGACTATTCTTCACGAGA
1 AAGTCAAGAATGACAACACTAAAAGGTTGACTCCTCTTCACGAGA
*
23304 AAGCCAAG
1 AAGTCAAG
23312 TTGCCTAGAA
Statistics
Matches: 452, Mismatches: 88, Indels: 16
0.81 0.16 0.03
Matches are distributed among these distances:
43 5 0.01
44 30 0.07
45 378 0.84
46 39 0.09
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (45 bp):
AAGTCAAGAATGACAACACTAAAAGGTTGACTCCTCTTCACGAGA
Found at i:23527 original size:19 final size:20
Alignment explanation
Indices: 23491--23530 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
23481 AAAATTTATC
23491 ATGTATGTATGAAATGATGA
1 ATGTATGTATGAAATGATGA
*
23511 ATGTATG-ATGCAATGATGA
1 ATGTATGTATGAAATGATGA
23530 A
1 A
23531 AATTCATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.33
Consensus pattern (20 bp):
ATGTATGTATGAAATGATGA
Found at i:23718 original size:12 final size:12
Alignment explanation
Indices: 23701--23729 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
23691 TGAGCTCATT
23701 TTGCCCAAAACA
1 TTGCCCAAAACA
23713 TTGCCCAAAACA
1 TTGCCCAAAACA
23725 TTGCC
1 TTGCC
23730 AATTACCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.10, T:0.21
Consensus pattern (12 bp):
TTGCCCAAAACA
Found at i:24804 original size:3 final size:3
Alignment explanation
Indices: 24796--24821 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24786 TATGCTCTCT
24796 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
24822 TTTTCTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:24830 original size:12 final size:13
Alignment explanation
Indices: 24795--24871 Score: 61
Period size: 14 Copynumber: 5.7 Consensus size: 13
24785 ATATGCTCTC
24795 TTTCTTCTTCTTCT
1 TTTCTTCTTCTT-T
24809 TCTTCTTCTTCTTT
1 T-TTCTTCTTCTTT
24823 TTTC-TCTT-TATT
1 TTTCTTCTTCT-TT
*
24835 TTT-TTCTCTTTTT
1 TTTCTTCT-TCTTT
*
24848 ATTTCTTTTTCTTT
1 -TTTCTTCTTCTTT
24862 TTTCTATCTT
1 TTTCT-TCTT
24872 TTCTCTTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
11 1 0.02
12 12 0.23
13 11 0.21
14 14 0.27
15 14 0.27
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTCTTCTTCTTT
Found at i:24852 original size:26 final size:26
Alignment explanation
Indices: 24811--24873 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
24801 CTTCTTCTTC
24811 TTCT-TCTTCTTTTTTCTCTTTATTTT
1 TTCTATCTT-TTTTTTCTCTTTATTTT
* * *
24837 TT-TCTCTTTTTATTTCTTTTTCTTTT
1 TTCTATCTTTTT-TTTCTCTTTATTTT
24863 TTCTATCTTTT
1 TTCTATCTTTT
24874 CTCTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 4 0.13
26 20 0.65
27 7 0.23
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (26 bp):
TTCTATCTTTTTTTTCTCTTTATTTT
Found at i:24882 original size:18 final size:16
Alignment explanation
Indices: 24791--24883 Score: 68
Period size: 18 Copynumber: 5.7 Consensus size: 16
24781 CTTGATATGC
*
24791 TCTCTTTCTTCTTCTTCT
1 TCTCTTT-TTTTTCTT-T
* *
24809 TCTTCTTCTTCTT-TTT
1 TC-TCTTTTTTTTCTTT
*
24825 TCTC-TTTATTT-TTT
1 TCTCTTTTTTTTCTTT
24839 TCTCTTTTTATTTCTTT
1 TCTCTTTTT-TTTCTTT
24856 T-TCTTTTTTCTATCTTT
1 TCTCTTTTTT-T-TCTTT
24873 TCTCTTTTTTT
1 TCTCTTTTTTT
24884 CTTGAATATG
Statistics
Matches: 63, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
14 11 0.17
15 6 0.10
16 14 0.22
17 13 0.21
18 15 0.24
19 4 0.06
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (16 bp):
TCTCTTTTTTTTCTTT
Found at i:34440 original size:233 final size:233
Alignment explanation
Indices: 33905--34516 Score: 872
Period size: 233 Copynumber: 2.6 Consensus size: 233
33895 TGGGCCATCA
*
33905 ATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTT
1 ATAAGTCTTTCGAGCAAGATGATAAGTTCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTT
* * *
33970 TCACATGTCTCTCGAAAAATGAGAAAAATTTCTCATTTAAATCTGAAAATTGAAATTGTTGAAAA
66 TCACATGTCTCTCAAAAAATGAGAAAAATTTCTCATTTAAATCTGAAAATTGAAATTTTTTAAAA
* * * * * *
34035 GTAAGGAAAGTTTCTTATCTAGTAAACTATTTCCAAAATTAGTACGTCCTTCGGGCCATTAGTAA
131 GTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTAGTAAGTCCTTCAGGCCATCAGCAA
34100 GTCTTTCGAGCATGATGCTTAAATCCTTCGGGTAATCT
196 GTCTTTCGAGCATGATGCTTAAATCCTTCGGGTAATCT
* * * *
34138 ATAAGTCTTTCGAGCAATATGATAAG-TCTTTCGGGCCATCGATATGACCTTCGGGTAGGATGTT
1 ATAAGTCTTTCGAGCAAGATGATAAGTTC-TTCGGGCCATCCATAAGACCTTCGGGCAGGATGTT
* *
34202 TTCACATATCTCTCAAAAAATGAGAAAAATTTCTCATTTAAAGCTGAAAATTGAAATTTTTTAAA
65 TTCACATGTCTCTCAAAAAATGAGAAAAATTTCTCATTTAAATCTGAAAATTGAAATTTTTTAAA
*
34267 AGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAAGTCCTTCAGGCCATCAGC
130 AGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTAGT-AAGTCCTTCAGGCCATCAGC
* * *
34332 AAGTCTTTTGAGCATGATGCTTAAATCCTTTGGGTCATCT
194 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTAATCT
* * *
34372 GTAAGTCTTTCGAGCAAGATGATAAGTTCTTCGGGCCATCCACAAGACCTTTGGGCAGGATG-TT
1 ATAAGTCTTTCGAGCAAGATGATAAGTTCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTT
* * * *
34436 TCACATGT-TTTAAAAAAAAAAAGGAGAAAAGTTTCTCATTTTAAATCTGAAAATTGAAA-TTTT
66 TCACATGTCTCT----CAAAAAATGAGAAAAATTTCTCA-TTTAAATCTGAAAATTGAAATTTTT
34499 TAAAATGGTAAGAAAAGT
126 TAAAA--GTAAGAAAAGT
34517 AAGTCCTTCG
Statistics
Matches: 336, Mismatches: 33, Indels: 15
0.88 0.09 0.04
Matches are distributed among these distances:
232 3 0.01
233 167 0.50
234 105 0.31
235 2 0.01
236 29 0.09
237 19 0.06
238 11 0.03
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (233 bp):
ATAAGTCTTTCGAGCAAGATGATAAGTTCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTT
TCACATGTCTCTCAAAAAATGAGAAAAATTTCTCATTTAAATCTGAAAATTGAAATTTTTTAAAA
GTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTAGTAAGTCCTTCAGGCCATCAGCAA
GTCTTTCGAGCATGATGCTTAAATCCTTCGGGTAATCT
Found at i:34565 original size:205 final size:201
Alignment explanation
Indices: 34312--34717 Score: 541
Period size: 205 Copynumber: 2.0 Consensus size: 201
34302 AAAATTGGTA
** ** *
34312 AAGTCCTTCAGGCCATCAGCAAGTCTTTTGAGCATGATGCTTAAATCCTTTGGGTCATCTGTAAG
1 AAGTCCTTCAGGCCATCAGCAAGTCTTTCAAGCATGATGAGTAAATCCTTCGGGTCATCTGTAAG
* *
34377 TCTTTCGAGCAAGATGATAAGTTC-TTCGGGCCATCCACAAGACCTTTGGGCAGGATG-TTTCAC
66 TCTTTCGAGCAAGATGATAAG-TCATTCGGGCCATCCACAAGACCTTCGGACAGGATGTTTTCAC
*
34440 ATGT-TTTAAAAAAAAAAAGGAGAAAAGTTTCTCATTTTAAATCTGAAAATTGAAATTTTTA-AA
130 ATGTCTCT----AAAAAAAGGAGAAAAGTTTCTCA-TTTAAATCTGAAAATTGAAATTTTTACAA
34503 ATGGTAAGAAAAGT
190 A--GTAAGAAAAGT
* * *
34517 AAGTCCTTCGGGCCATTAGTAAGTCTTTCAAGCATGATGAGTAAATCCTTCGGGTCATCTGTAAG
1 AAGTCCTTCAGGCCATCAGCAAGTCTTTCAAGCATGATGAGTAAATCCTTCGGGTCATCTGTAAG
* * *
34582 TCTTTCGAGCAAGATGATAAGTCATTCGGGCTATCCATAAGACCTTCGGACATGATGTTTTCACA
66 TCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCCACAAGACCTTCGGACAGGATGTTTTCACA
** * * *
34647 TGTCTCTCGAAAAATGAGAAAAGTTTCTCATTTAATTCTGAAACTTGAAATTTTTACAAAGTAAG
131 TGTCTCTAAAAAAAGGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTACAAAGTAAG
34712 AAAAGT
196 AAAAGT
34718 TTCTACCTGG
Statistics
Matches: 178, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
201 11 0.06
202 24 0.13
203 23 0.13
204 2 0.01
205 106 0.60
206 10 0.06
207 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (201 bp):
AAGTCCTTCAGGCCATCAGCAAGTCTTTCAAGCATGATGAGTAAATCCTTCGGGTCATCTGTAAG
TCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCCACAAGACCTTCGGACAGGATGTTTTCACA
TGTCTCTAAAAAAAGGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTACAAAGTAAG
AAAAGT
Found at i:34581 original size:42 final size:42
Alignment explanation
Indices: 34514--34612 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
34504 TGGTAAGAAA
*
34514 AGTAAGTCCTTCGGGCCATTAGTAAGTCTTTCAAGCATGATG
1 AGTAAGTCCTTCGGGCCATTAGTAAGTCTTTCAAGCAAGATG
* * *
34556 AGTAAATCCTTCGGGTCATCT-GTAAGTCTTTCGAGCAAGATG
1 AGTAAGTCCTTCGGGCCAT-TAGTAAGTCTTTCAAGCAAGATG
*
34598 A-TAAGTCATTCGGGC
1 AGTAAGTCCTTCGGGC
34613 TATCCATAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 11 0.22
42 37 0.76
43 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
AGTAAGTCCTTCGGGCCATTAGTAAGTCTTTCAAGCAAGATG
Found at i:35048 original size:42 final size:41
Alignment explanation
Indices: 35001--35081 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 41
34991 GGGCCATCAA
* *
35001 TAAGTCTTTCGAGCATGATGAGTAAATCCCTCTGGTCATCTG
1 TAAGTCTTTCGAGCAAGATGA-TAAATCCCTCGGGTCATCTG
* * *
35043 TAAGTCTTTCTAGCAAGATGATAATTCCTTCGGGTCATC
1 TAAGTCTTTCGAGCAAGATGATAAATCCCTCGGGTCATC
35082 CATAAGACCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 15 0.44
42 19 0.56
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (41 bp):
TAAGTCTTTCGAGCAAGATGATAAATCCCTCGGGTCATCTG
Found at i:35361 original size:233 final size:234
Alignment explanation
Indices: 34517--36119 Score: 1946
Period size: 234 Copynumber: 6.9 Consensus size: 234
34507 TAAGAAAAGT
*
34517 AAGTCCTTCGGGCCATTAGTAAGTCTTTCAAGCATGATGAGTAAATCCTTCGGGTCATCTGTAAG
1 AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGAGTAAATCCTTCGGGTCATCTGTAAG
* * * *
34582 TCTTTCGAGCAAGATGATAAGTCATTCGGGCTATCCATAAGACCTTCGGACATGATGTTTTCACA
66 TCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACA
* * *
34647 TGTCTCTCGAAAAATGAGAAAAGTTTCTCATTTAATTCTGAAACTTGAAATTTTTACAAAGTAAG
131 TGTCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGCAAAGTAAG
* *
34712 AAAAGTTTC-TACCTGGTACACTATTTCCAAAATTGGTA
196 AAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
* * * ** ** * ** *
34750 AAGTCCTTCAGGCTATCAATAAGTCTTTCGTGCATGATGCTTAAATTCTTTAGGTCATTTGTAAG
1 AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGAGTAAATCCTTCGGGTCATCTGTAAG
* * ** *** *
34815 TCTTTCGAGCAAGATGATAAGTCATTCGGGCCTTCCGCAAGACCTTC-TAAAGGATTTTTTCACA
66 TCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACA
* *
34879 TGTATCTCG-AAAATGAGAAAAGTTTCTCATTTAAATATGAAAATTGAAATTTTTGCAAAGTAAG
131 TGTCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGCAAAGTAAG
* * *
34943 AAAAGTTTCTTACGTTGTAAACTTTTTCCAAAATTGGTA
196 AAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
* * * * *
34982 AAGTCTTTCGGGCCATCAATAAGTCTTTCGAGCATGATGAGTAAATCCCTCTGGTCATCTGTAAG
1 AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGAGTAAATCCTTCGGGTCATCTGTAAG
* * * * * * * *
35047 TCTTTCTAGCAAGATGATAATTCCTTCGGGTCATCCATAAGACCTTCAGACATGATATTTTCATA
66 TCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACA
* * * *
35112 TATCTCTCGGAAAATGAGAAAAGTTTCTCATTTAAATATGAAAATTGAATTTTTTGCAAAGTAAG
131 TGTCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGCAAAGTAAG
*
35177 AAAAGCTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
196 AAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
* * * ** *
35216 AAGTTCTTCAGGCCATCAGTAAGTATTTCAAGTGTGAAGAGTAAATCCTTC-GGTCATCTGTAAG
1 AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGAGTAAATCCTTCGGGTCATCTGTAAG
*
35280 TCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAATACCTTCGGGCAGGATGTTTTCACA
66 TCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACA
** *
35345 TGTCTCTCGAAAAATGAGAAACAAATTCTCATTTAAATCTGAAAAATGAAATTTTTGCAAAGTAA
131 TGTCTCTCGAAAAATGAGAAA-AGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGCAAAGTAA
* ** *
35410 TAAAAGTTTCTTATATAGTAAACTATTTCCAAAATTGTTA
195 GAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
** * *
35450 AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCATTCGAGTCATCTGTAAG
1 AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGAGTAAATCCTTCGGGTCATCTGTAAG
* * * * * *
35515 TCTTTCGAGCAAGATAATATGTCCTTCGGGCCATCAACAAGACCTTTGAGCAGGATGTTTTCACA
66 TCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACA
* * * *
35580 TGTCTATCGAAAAAAGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTGTTGAAAAGTAAG
131 TGTCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGCAAAGTAAG
* * * *
35645 AAAAGTTTTTTACATAGTAAACTATTTCTAAAGTTGGTA
196 AAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
** * * * * * *
35684 AAGTTTTTCGGGCCATCAGTAAGTCTTTCGAGTATGATG-CTCAAATCATTCAGGT-ATATGTAA
1 AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGAGT-AAATCCTTCGGGTCATCTGTAA
* * ** * * * *
35747 GTCTTTCAAGCAAGATTATAAGTCCTTTAGGCCATCCACAATACCTTTGGGCAGGATGTTTTAAC
65 GTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAC
* * * *
35812 ATGTCTCTCGAAAAAAAATGAAAAAAGTTTCTCATTTAAATCTGAAAAATTGAACTTTTGGAAAA
130 ATGTCTCTCG---AAAAATGAGAAAAGTTTCTCATTTAAATCTG-AAAATTGAAATTTTTGCAAA
*
35877 GTAAGAAAAGTTTCTTACCTAGTAAACTATTTTCAAAATTGGT-
191 GTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
* * * ** *
35920 AAGTCCTTAGGGCTATCAATAAGTCTTTTGAGCATGATGAGTAAATCCTTCGGGTCATCTATAAG
1 AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGAGTAAATCCTTCGGGTCATCTGTAAG
* * * * * *
35985 CCTTTTGAGCAAGATGATAAGTCTTTC-AGCCCTCCATAAGACCTTCGGGCAGTATGCTTTT-AC
66 TCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATG-TTTTCAC
* * * * * *
36048 ATGTTTTTTTCGAAAAATGAGAAAAGTTTTTTATTTAAATCTGAAAATTAAAATTTTTGAAAAGT
130 ATG--TCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGCAAAGT
*
36113 AAAAAAA
193 AAGAAAA
36120 TGATTTCCAA
Statistics
Matches: 1174, Mismatches: 181, Indels: 29
0.85 0.13 0.02
Matches are distributed among these distances:
231 60 0.05
232 140 0.12
233 276 0.24
234 388 0.33
235 117 0.10
236 100 0.09
237 88 0.07
238 5 0.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (234 bp):
AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGAGTAAATCCTTCGGGTCATCTGTAAG
TCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACA
TGTCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGCAAAGTAAG
AAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTA
Found at i:36890 original size:42 final size:40
Alignment explanation
Indices: 36843--36971 Score: 105
Period size: 42 Copynumber: 3.3 Consensus size: 40
36833 CAAACCAGGA
36843 GCCCAATTACAATAGGCCCAATCAGGCCACCAATCTGACCTG
1 GCCCAATTACAA-AGGCCCAATCAGGCCACCAATCTGA-CTG
* * **
36885 GCCCAATTAC-AA-G--CAATCTTA-ACC-CAAAT-T-A-AA
1 GCCCAATTACAAAGGCCCAATC--AGGCCACCAATCTGACTG
36918 GCCCAATTACAACAGGCCCAATCAGGCCACCAATCTGACTTG
1 GCCCAATTACAA-AGGCCCAATCAGGCCACCAATCTGAC-TG
36960 GCCCAATTACAA
1 GCCCAATTACAA
36972 GCAATCCTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 26
0.66 0.08 0.26
Matches are distributed among these distances:
33 10 0.15
34 1 0.02
35 2 0.03
36 3 0.05
37 11 0.17
38 11 0.17
39 3 0.05
40 2 0.03
41 1 0.02
42 22 0.33
ACGTcount: A:0.36, C:0.33, G:0.13, T:0.18
Consensus pattern (40 bp):
GCCCAATTACAAAGGCCCAATCAGGCCACCAATCTGACTG
Found at i:36965 original size:75 final size:75
Alignment explanation
Indices: 36842--36998 Score: 287
Period size: 75 Copynumber: 2.1 Consensus size: 75
36832 GCAAACCAGG
* *
36842 AGCCCAATTACAATAGGCCCAATCAGGCCACCAATCTGACCTGGCCCAATTACAAGCAATCTTAA
1 AGCCCAATTACAACAGGCCCAATCAGGCCACCAATCTGACCTGGCCCAATTACAAGCAATCCTAA
36907 CCCAAATTAA
66 CCCAAATTAA
*
36917 AGCCCAATTACAACAGGCCCAATCAGGCCACCAATCTGACTTGGCCCAATTACAAGCAATCCTAA
1 AGCCCAATTACAACAGGCCCAATCAGGCCACCAATCTGACCTGGCCCAATTACAAGCAATCCTAA
36982 CCCAAATTAA
66 CCCAAATTAA
36992 AGCCCAA
1 AGCCCAA
36999 ACCCATTAGG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.38, C:0.33, G:0.12, T:0.17
Consensus pattern (75 bp):
AGCCCAATTACAACAGGCCCAATCAGGCCACCAATCTGACCTGGCCCAATTACAAGCAATCCTAA
CCCAAATTAA
Found at i:39058 original size:131 final size:131
Alignment explanation
Indices: 38865--39224 Score: 483
Period size: 131 Copynumber: 2.7 Consensus size: 131
38855 GAGAATAATA
* * * *
38865 ATATCTTTTCATTTC-AGTTGGGGTAATAAATGATTGCTTTAAGGCATAAGAGG-CTATTTATTT
1 ATATCTCTTCATTTCGA-TTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGTC-ATTTATTT
* *
38928 TCGATTGAAAATAATTCGATATTA-CTATTTTCTCTCGAATCAATATTGATTTTTGAGACGGAAT
64 TCGATTGAAAATAATTCGATATTATC-ATTTTCTCTCAAATCAATATTGATTTTTAAGACGGAAT
38992 AGTG
128 AGTG
*
38996 ATATCTCTTCATTTCGATTGGAGCAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTTTC
1 ATATCTCTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTTTC
* * *
39061 GATTGAAAATAATTCGATATTATCGTTTTCTCTCAAATTAATATTGATTTTTAAGATGGAATAGT
66 GATTGAAAATAATTCGATATTATCATTTTCTCTCAAATCAATATTGATTTTTAAGACGGAATAGT
39126 G
131 G
* * * * * *
39127 ATATCTCTTCATTTCGATTGGAACAATAAATTATTGCTTTAAGGTACGAAAGGTCATTTATTCTC
1 ATATCTCTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTTTC
* * * * *
39192 GATAGGAAATAATTAGATATTATCGTTCTCTCT
66 GATTGAAAATAATTCGATATTATCATTTTCTCT
39225 TAAAATTATT
Statistics
Matches: 205, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
131 202 0.99
132 3 0.01
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (131 bp):
ATATCTCTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTTTC
GATTGAAAATAATTCGATATTATCATTTTCTCTCAAATCAATATTGATTTTTAAGACGGAATAGT
G
Found at i:41236 original size:18 final size:18
Alignment explanation
Indices: 41215--41250 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
41205 ACTCAAATCG
41215 AATAAATAAATTAAATTA
1 AATAAATAAATTAAATTA
* *
41233 AATATATAAATTTAATTA
1 AATAAATAAATTAAATTA
41251 GTTTGATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AATAAATAAATTAAATTA
Found at i:43181 original size:18 final size:18
Alignment explanation
Indices: 43158--43195 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
43148 TAATTTGAGG
*
43158 ATCAATATATAATTAAAA
1 ATCAATAAATAATTAAAA
*
43176 ATCAATAAATAATTTAAA
1 ATCAATAAATAATTAAAA
43194 AT
1 AT
43196 AGAGGTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
ATCAATAAATAATTAAAA
Found at i:43564 original size:18 final size:18
Alignment explanation
Indices: 43524--43565 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
43514 CCTCTTGAAA
*
43524 ATTTTAAATTTTCTAATAT
1 ATTTT-AATTTTCTAACAT
*
43543 -TTTTAATTTTTTAACAT
1 ATTTTAATTTTCTAACAT
43560 ATTTTA
1 ATTTTA
43566 TATTGATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTAATTTTCTAACAT
Found at i:44172 original size:59 final size:59
Alignment explanation
Indices: 44047--44204 Score: 149
Period size: 59 Copynumber: 2.7 Consensus size: 59
44037 GGATGAATTT
* * * * *
44047 GGGGATGAAATTGAAAGGTTCAAAAGTTTAGGGACCAATTCAAAATGAGATTCATAGTTT
1 GGGGATGAAATTG-AATGTTCAAAAGTTTAAGGACCAATTCAAAACGAGAGTCATAGTTG
** * * * *
44107 AAGGATGAAATTAGAATGTTC-AAAGTTTAATGACTAATTTAGAACGAGAGTCATAGTTG
1 GGGGATGAAATT-GAATGTTCAAAAGTTTAAGGACCAATTCAAAACGAGAGTCATAGTTG
* * *
44166 GGGGATGAAATTGGAATGTTTAAAA-ATTAAGGATCAATT
1 GGGGATGAAATT-GAATGTTCAAAAGTTTAAGGACCAATT
44205 TGAAATTAGG
Statistics
Matches: 77, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
59 57 0.74
60 19 0.25
61 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (59 bp):
GGGGATGAAATTGAATGTTCAAAAGTTTAAGGACCAATTCAAAACGAGAGTCATAGTTG
Found at i:49310 original size:3 final size:3
Alignment explanation
Indices: 49302--49350 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
49292 AGTCTTTTAT
*
49302 GAA GAA GAA GAA GAA GAA GAG GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
49350 G
1 G
49351 GTGAATTAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:50802 original size:14 final size:15
Alignment explanation
Indices: 50783--50811 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50773 CAAGAACAAG
50783 TCAAACTAAA-AAAA
1 TCAAACTAAAGAAAA
50797 TCAAACTAAAGAAAA
1 TCAAACTAAAGAAAA
50812 AATGTTTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.14, G:0.03, T:0.14
Consensus pattern (15 bp):
TCAAACTAAAGAAAA
Found at i:57446 original size:28 final size:28
Alignment explanation
Indices: 57411--57468 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
57401 TCAACTATAA
57411 ATACCCTAGCCCATTTAGCTTCAAAATC
1 ATACCCTAGCCCATTTAGCTTCAAAATC
57439 ATACCCTAGCCCATTTAGCTTCAAAATC
1 ATACCCTAGCCCATTTAGCTTCAAAATC
57467 AT
1 AT
57469 CCCAAATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.31, G:0.07, T:0.29
Consensus pattern (28 bp):
ATACCCTAGCCCATTTAGCTTCAAAATC
Found at i:58602 original size:11 final size:11
Alignment explanation
Indices: 58586--58615 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
58576 GCATGAAAAA
58586 GAAGGAAACTT
1 GAAGGAAACTT
58597 GAAGGAAACTT
1 GAAGGAAACTT
*
58608 GAAAGAAA
1 GAAGGAAA
58616 GAAGGAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.27, T:0.13
Consensus pattern (11 bp):
GAAGGAAACTT
Found at i:59993 original size:2 final size:2
Alignment explanation
Indices: 59986--60026 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
59976 CACAACACAA
59986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60027 ACATACATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:62894 original size:3 final size:3
Alignment explanation
Indices: 62886--62917 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
62876 ACAAGGTAGA
*
62886 AGG AGG AGG AGG AGG TGG AGG AGG AGG AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AG
62918 AAGTAGAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.66, T:0.03
Consensus pattern (3 bp):
AGG
Found at i:62925 original size:6 final size:6
Alignment explanation
Indices: 62916--62946 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
62906 GAGGAGGAGG
62916 AGAAGT AGAAGT AGAAGT AGAAGT AG-AGT AG
1 AGAAGT AGAAGT AGAAGT AGAAGT AGAAGT AG
62947 TGTCAGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.48, C:0.00, G:0.35, T:0.16
Consensus pattern (6 bp):
AGAAGT
Found at i:63382 original size:17 final size:17
Alignment explanation
Indices: 63360--63403 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
63350 ATGTAAAAAT
63360 AAATATTTAAATTTAAA
1 AAATATTTAAATTTAAA
** **
63377 AAATATAAAAATTTATT
1 AAATATTTAAATTTAAA
63394 AAATATTTAA
1 AAATATTTAA
63404 TCAAGTATGA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Found at i:64579 original size:17 final size:18
Alignment explanation
Indices: 64557--64590 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64547 AAATTATTTC
64557 ATTTTG-AAATAAATTAG
1 ATTTTGAAAATAAATTAG
64574 ATTTTGAAAATAAATTA
1 ATTTTGAAAATAAATTA
64591 ATGTTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
ATTTTGAAAATAAATTAG
Found at i:64600 original size:17 final size:18
Alignment explanation
Indices: 64563--64601 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
64553 TTTCATTTTG
* *
64563 AAATAAATTAGATTTTGA
1 AAATAAATTAGATGTTAA
64581 AAATAAATTA-ATGTTAA
1 AAATAAATTAGATGTTAA
64598 AAAT
1 AAAT
64602 TAAGGAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (18 bp):
AAATAAATTAGATGTTAA
Found at i:66361 original size:23 final size:23
Alignment explanation
Indices: 66335--66401 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
66325 AAAAGAAGAC
66335 GAAAAATGTGTCACAAAGGTAAA
1 GAAAAATGTGTCACAAAGGTAAA
** ** ** *
66358 GAAAAACATACCTTAAAGGCAAA
1 GAAAAATGTGTCACAAAGGTAAA
66381 GAAAAATGTGTCACAAAGGTA
1 GAAAAATGTGTCACAAAGGTA
66402 GAATTATTCT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.52, C:0.12, G:0.19, T:0.16
Consensus pattern (23 bp):
GAAAAATGTGTCACAAAGGTAAA
Found at i:69056 original size:14 final size:13
Alignment explanation
Indices: 69035--69074 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
69025 CTTATTTTCC
69035 TTATTTTTCATTT
1 TTATTTTTCATTT
69048 TTCATTTTTCA-TT
1 TT-ATTTTTCATTT
69061 TTATTTTT-ATTT
1 TTATTTTTCATTT
69073 TT
1 TT
69075 TTATTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.04
12 10 0.40
13 6 0.24
14 8 0.32
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (13 bp):
TTATTTTTCATTT
Found at i:69082 original size:6 final size:7
Alignment explanation
Indices: 69037--69074 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
69027 TATTTTCCTT
69037 ATTTTTC
1 ATTTTTC
69044 ATTTTTC
1 ATTTTTC
69051 ATTTTTC
1 ATTTTTC
69058 A-TTTT-
1 ATTTTTC
69063 ATTTTT-
1 ATTTTTC
69069 ATTTTT
1 ATTTTT
69075 TTATTTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 1 0.03
6 14 0.47
7 15 0.50
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (7 bp):
ATTTTTC
Found at i:79486 original size:33 final size:33
Alignment explanation
Indices: 79444--79515 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
79434 GGATTAGAAT
79444 TTAATAAAATATTAATAAAATAAATTTGAGTTA
1 TTAATAAAATATTAATAAAATAAATTTGAGTTA
*
79477 TTAATAAAATATTAATAAAATTAATTTGAGTTA
1 TTAATAAAATATTAATAAAATAAATTTGAGTTA
79510 TTAATA
1 TTAATA
79516 GATGCCATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (33 bp):
TTAATAAAATATTAATAAAATAAATTTGAGTTA
Found at i:81390 original size:22 final size:22
Alignment explanation
Indices: 81362--81405 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
81352 AAATATAAAT
81362 AAATAAATTTGAGTTATTAATA
1 AAATAAATTTGAGTTATTAATA
81384 AAATAAATTTGAGTTATTAATA
1 AAATAAATTTGAGTTATTAATA
81406 GATGTCATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (22 bp):
AAATAAATTTGAGTTATTAATA
Found at i:83306 original size:58 final size:60
Alignment explanation
Indices: 83232--83345 Score: 187
Period size: 58 Copynumber: 1.9 Consensus size: 60
83222 CACAAATGGT
* *
83232 CCATGACTATAGGGTGTTGCTTTGTTGAGTTA-CCGACTATTAAAAGTTACAAAATTGTC
1 CCATGACTATAGGGTGTTGCTTTGTTGAGTCATCCAACTATTAAAAGTTACAAAATTGTC
*
83291 CCAT-ACTATAGGGTGTTGCTTTGTTGAGTCATTCAACTATTAAAAGTTACAAAAT
1 CCATGACTATAGGGTGTTGCTTTGTTGAGTCATCCAACTATTAAAAGTTACAAAAT
83346 GGTCACTCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
58 26 0.51
59 25 0.49
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (60 bp):
CCATGACTATAGGGTGTTGCTTTGTTGAGTCATCCAACTATTAAAAGTTACAAAATTGTC
Found at i:83772 original size:60 final size:60
Alignment explanation
Indices: 83679--83808 Score: 179
Period size: 60 Copynumber: 2.2 Consensus size: 60
83669 GAACATATGA
* * * *
83679 ATAGTTGGGTGATCATTATATAACTTTTAATAGTCACGAGACTCAACAAAACAACGCCCT
1 ATAGTAGGGGGATCATTATATAACTTTTAATAGTCAAGAGACTCAACAAAACAACACCCT
* * * * *
83739 ATAGTCGGGGGATCATTTTATAACTTTTAATAGTCAAGGGACTCAACAAATCAACACCTT
1 ATAGTAGGGGGATCATTATATAACTTTTAATAGTCAAGAGACTCAACAAAACAACACCCT
83799 ATAGTAGGGG
1 ATAGTAGGGG
83809 AACCATTTGT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (60 bp):
ATAGTAGGGGGATCATTATATAACTTTTAATAGTCAAGAGACTCAACAAAACAACACCCT
Found at i:86544 original size:53 final size:53
Alignment explanation
Indices: 86457--86559 Score: 138
Period size: 53 Copynumber: 1.9 Consensus size: 53
86447 GTGGGCACAT
* * * *
86457 GCCCACCCTGAAATCCAAATTTTCTTCGTATAATTATCTATTTTATTGATGGC
1 GCCCACCCTGAAAACCAAATTTTCTTCATATAATTACCTATTTTACTGATGGC
86510 GCCCACCCT-AAAACCTAAATTTTCTTCA-ATTAATTACCTATTTTACTGAT
1 GCCCACCCTGAAAACC-AAATTTTCTTCATA-TAATTACCTATTTTACTGAT
86560 TGTGTCCATC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
52 6 0.14
53 38 0.86
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (53 bp):
GCCCACCCTGAAAACCAAATTTTCTTCATATAATTACCTATTTTACTGATGGC
Found at i:88562 original size:109 final size:108
Alignment explanation
Indices: 88322--88546 Score: 262
Period size: 109 Copynumber: 2.1 Consensus size: 108
88312 CAAAATAAAA
* * *
88322 AAAAACACGCCTAAA-T-CAGGGGACTAAACAACAAATATCCCAAAAAATCATAACATGCATGAA
1 AAAAACACG-CTAAACTATAGGGGACTAAACAACAAATACCCCAAAAAATCATAACATGCATAAA
* * *
88385 AATGGGTAAATAACAACATCAGTCCCTACAGGTGACCAACATGC
65 AATGAGTAAATAACAACATCAGTCCCTACAGGTAACCAACATAC
*
88429 AAAAACACGCTAAACTATAGGGGACTAAACAATCAACAT-CCCCAAAACTAT-ATAACATGCATA
1 AAAAACACGCTAAACTATAGGGGACTAAACAA-CAA-ATACCCCAAAA-AATCATAACATGCATA
* ** * *
88492 AAAATGAGTAAATAGCAAGTTC-GATCCTTACAGGTAACTAACATAC
63 AAAATGAGTAAATAACAACATCAG-TCCCTACAGGTAACCAACATAC
88538 AAAAACACG
1 AAAAACACG
88547 GTTAAGTTAG
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
106 5 0.05
107 10 0.10
108 15 0.15
109 66 0.66
110 4 0.04
ACGTcount: A:0.48, C:0.22, G:0.13, T:0.17
Consensus pattern (108 bp):
AAAAACACGCTAAACTATAGGGGACTAAACAACAAATACCCCAAAAAATCATAACATGCATAAAA
ATGAGTAAATAACAACATCAGTCCCTACAGGTAACCAACATAC
Found at i:89367 original size:15 final size:14
Alignment explanation
Indices: 89331--89377 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 14
89321 TTGGGTCTGC
89331 AAATATTAAAATAAA
1 AAATA-TAAAATAAA
89346 ATTAATATAAATATAAA
1 A--AATATAAA-ATAAA
89363 AAATA-AAAATAAA
1 AAATATAAAATAAA
89376 AA
1 AA
89378 TAAAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 7 0.24
14 3 0.10
15 5 0.17
16 4 0.14
17 10 0.34
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATAAAATAAA
Found at i:89745 original size:86 final size:87
Alignment explanation
Indices: 89618--89821 Score: 257
Period size: 86 Copynumber: 2.4 Consensus size: 87
89608 ATAAGCTCCG
* * * ** * *
89618 CTGCTTCTTCAGGGTAGATCAAATATGGAAACATTGATTCATTCCACTTTTCTTCAGGGAAGATT
1 CTGCTACTTCAGGGAAAATCAAATATGGAAACATTGATTCATTCCACAGTTCTTCAAGGAAAATT
89683 GAATCGAGGAAAACTTGTTCCA
66 GAATCGAGGAAAACTTGTTCCA
* * * *
89705 CTGCTAC-TCATGGAAAATCAAATTTGGAGACGTTGATTCATTCCACAGTTCTTCAAGGAAAATT
1 CTGCTACTTCAGGGAAAATCAAATATGGAAACATTGATTCATTCCACAGTTCTTCAAGGAAAATT
* *
89769 GAATCGAGGTATACTTGTTCCA
66 GAATCGAGGAAAACTTGTTCCA
* * *
89791 CTTCTTCTTCAGGGAATATCAAATATGGAAA
1 CTGCTACTTCAGGGAAAATCAAATATGGAAA
89822 AAGAAAGGGG
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
86 72 0.74
87 25 0.26
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (87 bp):
CTGCTACTTCAGGGAAAATCAAATATGGAAACATTGATTCATTCCACAGTTCTTCAAGGAAAATT
GAATCGAGGAAAACTTGTTCCA
Found at i:89969 original size:139 final size:138
Alignment explanation
Indices: 89729--90021 Score: 385
Period size: 139 Copynumber: 2.1 Consensus size: 138
89719 AAATCAAATT
* * * *
89729 TGGAGACGTTGATTCATTCCACAGTTCTTCAAGGAAAATTGAATCGAGGTATACTTGTTCCACTT
1 TGGAAACGTTGATTCATTCAACAGTTCTTCAAGGAAAATTGAATCGAGGCAGACTTGTTCCACTT
* * *
89794 CTTCTTCAGGGAATATCAAATATGGAAAAAGAAAGGGGATCTGCT-CAGTTGCTTTTTTTAGGGT
66 CTTCTTCAGGGAAGATCAAATATGGAAAAAGAAAGGGGATCTGCTCCA-CTG-TTTTTTCAGGGT
*
89858 AAATCAGAT-
129 AAATAAGATC
* * ** * *
89867 TCGTAAACTTTGATTCATTCAATTGTTCTTTAGGGAAAATTGAATCGAGGCAGACTTGTTCCACT
1 T-GGAAACGTTGATTCATTCAACAGTTCTTCAAGGAAAATTGAATCGAGGCAGACTTGTTCCACT
* *
89932 GT-TTCTTCAGGGAAGATCAAATCTTGAAAAAGAAAGGGGATCTGCTCCACTGTTTTTTCAGGGT
65 -TCTTCTTCAGGGAAGATCAAATATGGAAAAAGAAAGGGGATCTGCTCCACTGTTTTTTCAGGGT
89996 AAATAAGATC
129 AAATAAGATC
90006 TGGAAACGTTGATTCA
1 TGGAAACGTTGATTCA
90022 ATCCATTAGA
Statistics
Matches: 133, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
138 33 0.25
139 97 0.73
140 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (138 bp):
TGGAAACGTTGATTCATTCAACAGTTCTTCAAGGAAAATTGAATCGAGGCAGACTTGTTCCACTT
CTTCTTCAGGGAAGATCAAATATGGAAAAAGAAAGGGGATCTGCTCCACTGTTTTTTCAGGGTAA
ATAAGATC
Found at i:91337 original size:8 final size:8
Alignment explanation
Indices: 91324--91362 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
91314 TCTTGAACCC
91324 TTTTTTGTT
1 TTTTTTG-T
*
91333 TTTTTTTT
1 TTTTTTGT
91341 GTTTTTTGT
1 -TTTTTTGT
91350 TTTTTTGT
1 TTTTTTGT
91358 TTTTT
1 TTTTT
91363 CATTTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 14 0.52
9 13 0.48
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (8 bp):
TTTTTTGT
Found at i:91354 original size:15 final size:15
Alignment explanation
Indices: 91334--91362 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
91324 TTTTTTGTTT
91334 TTTTTTTGTTTTTTG
1 TTTTTTTGTTTTTTG
91349 TTTTTTTGTTTTTT
1 TTTTTTTGTTTTTT
91363 CATTTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTTTTTTGTTTTTTG
Found at i:91369 original size:9 final size:9
Alignment explanation
Indices: 91357--91405 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
91347 TGTTTTTTTG
91357 TTTTTTCAT
1 TTTTTTCAT
91366 TTTTTTCA-
1 TTTTTTCAT
91374 TTTTTTCAT
1 TTTTTTCAT
*
91383 TTTTTTCTT
1 TTTTTTCAT
91392 TCTTTTTCAT
1 T-TTTTTCAT
91402 TTTT
1 TTTT
91406 ATTCTTTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 8 0.22
9 20 0.56
10 8 0.22
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:91369 original size:17 final size:17
Alignment explanation
Indices: 91333--91405 Score: 78
Period size: 17 Copynumber: 4.3 Consensus size: 17
91323 CTTTTTTGTT
91333 TTTTTTTTGTTTTTT--
1 TTTTTTTTGTTTTTTCA
*
91348 GTTTTTTTGTTTTTTCA
1 TTTTTTTTGTTTTTTCA
**
91365 TTTTTTTCATTTTTTCA
1 TTTTTTTTGTTTTTTCA
*
91382 TTTTTTTCTTTCTTTTTCA
1 TTTTTTT-TGT-TTTTTCA
91401 TTTTT
1 TTTTT
91406 ATTCTTTCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
15 14 0.29
17 21 0.44
18 1 0.02
19 12 0.25
ACGTcount: A:0.05, C:0.08, G:0.04, T:0.82
Consensus pattern (17 bp):
TTTTTTTTGTTTTTTCA
Found at i:91405 original size:8 final size:8
Alignment explanation
Indices: 91357--91387 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
91347 TGTTTTTTTG
91357 TTTTTTCA
1 TTTTTTCA
91365 TTTTTTTCA
1 -TTTTTTCA
91374 TTTTTTCA
1 TTTTTTCA
91382 TTTTTT
1 TTTTTT
91388 TCTTTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTCA
Found at i:91417 original size:17 final size:16
Alignment explanation
Indices: 91349--91417 Score: 66
Period size: 17 Copynumber: 4.0 Consensus size: 16
91339 TTGTTTTTTG
* *
91349 TTTTTTTGTTTTTTCA
1 TTTTTTTCTTTCTTCA
*
91365 TTTTTTTCATTTTTTCA
1 TTTTTTTC-TTTCTTCA
91382 TTTTTTTCTTTCTTTTTCA
1 TTTTTTTCTTTC---TTCA
91401 TTTTTATTCTTTCTTCA
1 TTTTT-TTCTTTCTTCA
91418 GGTGAAGTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
16 10 0.22
17 20 0.43
19 9 0.20
20 7 0.15
ACGTcount: A:0.09, C:0.13, G:0.01, T:0.77
Consensus pattern (16 bp):
TTTTTTTCTTTCTTCA
Found at i:102291 original size:130 final size:130
Alignment explanation
Indices: 102055--102449 Score: 592
Period size: 130 Copynumber: 3.0 Consensus size: 130
102045 TAGATTTTAA
* *
102055 GAGAGAAAACGATAATATCTAATTATTTCCAATTGAGAATAAATGACCTCTCATGCCTTAATGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCG-GAATAAATGACCTCTCATGCCTTAAAGCA
* *
102120 GTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATT
65 ATCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATT
102185 C
130 C
102186 GAGAGAAAACGATAATATCTAATTATTTCCAATCGGAATAAATGACCTCTCATGCCTTAAAGCAA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGGAATAAATGACCTCTCATGCCTTAAAGCAA
* *
102251 TCATTTATTACTCCAATCGAAATGAAGATATATCATTATTTCATCTTAAAATTCAATATTGATTC
66 TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATTC
* * * * **
102316 GAGAGAAAACGATAATATCTAATTATTTTCAACCTAGAATAAATTATTTCTCATGCCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATC-GGAATAAATGACCTCTCATGCCTTAAAGCA
* * * * * * * *
102381 ATCATTTATTACTCTAACCAAAATAAAAAGATATTACTATTTCATCCTAAAATTCAATATTAATT
65 ATCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATT
102446 C
130 C
102447 GAG
1 GAG
102450 TGTTACTTAT
Statistics
Matches: 241, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
130 122 0.51
131 119 0.49
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (130 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCGGAATAAATGACCTCTCATGCCTTAAAGCAA
TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCATCTTAAAATTCAATATTGATTC
Found at i:108465 original size:2 final size:2
Alignment explanation
Indices: 108458--108487 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
108448 AATGAAGTAA
108458 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
108488 AGCATGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110061 original size:3 final size:3
Alignment explanation
Indices: 110053--110092 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
110043 ATTACTCAAT
* *
110053 ATA ATA ATA ATA ATA TTT ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
110093 AATGGGCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:110317 original size:39 final size:38
Alignment explanation
Indices: 110273--110786 Score: 439
Period size: 39 Copynumber: 13.6 Consensus size: 38
110263 AGGTTGAATA
* * *
110273 AGTTCTTCAGACTATGAACTTCCTCTTCCTCTTTAGATG
1 AGTTCTTCAGATTATGAAC-TCCTTTTCCTCTTCAGATG
* * * * *
110312 AGTTCTTTAAACTATGAACTCATTTTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTC-CTTTTCCTCTTCAGATG
* * ** * *
110351 AGTTCTTCATATTATGAACT-TTTTTTTTCTTTAGGTG
1 AGTTCTTCAGATTATGAACTCCTTTTCCTCTTCAGATG
* *
110388 AGTTTTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCC-TTTTCCTCTTCAGATG
* *
110427 ATTTCTTCATATTATGAACTCCTTCTTCCTCTTCAGATG
1 AGTTCTTCAGATTATGAACTCCTT-TTCCTCTTCAGATG
* * *
110466 AGTTCTTCAGATTATGAATTCTTTTTTTCTCTTCAGACT-
1 AGTTCTTCAGATTATGAACTC-CTTTTCCTCTTCAGA-TG
*
110505 AGTTCTTCAGATTATGAACTACTTTTTCCTCTTCAGATG
1 AGTTCTTCAGATTATGAACT-CCTTTTCCTCTTCAGATG
* **
110544 AGTTCTTCAGATTATGAACTCATTTTTTTTCTTCAGATG
1 AGTTCTTCAGATTATGAACTC-CTTTTCCTCTTCAGATG
* * *
110583 AATTCTTCAGATTATGAACTCCTTCTTCCTCTTTAGATT
1 AGTTCTTCAGATTATGAACTCCTT-TTCCTCTTCAGATG
* *
110622 AGTTCTTCAGATTATGAACTTCTTTTTTCTCTTC--A-G
1 AGTTCTTCAGATTATGAAC-TCCTTTTCCTCTTCAGATG
* * * *
110658 A-TT-AT--GA--ACT---C-CTTTTTCATCTTCAGACG
1 AGTTCTTCAGATTA-TGAACTCCTTTTCCTCTTCAGATG
* * * *
110687 AGTTCTTCAAATTATGAACTCCTTTT-TTCTTCAAACG
1 AGTTCTTCAGATTATGAACTCCTTTTCCTCTTCAGATG
* * *
110724 AGTTCTTCAGATTATAAACTCCTTTTTCCTCTTCATACG
1 AGTTCTTCAGATTATGAACTCC-TTTTCCTCTTCAGATG
110763 AGTTCTTCAGATTATGAACTCCTT
1 AGTTCTTCAGATTATGAACTCCTT
110787 CTGAAAATGT
Statistics
Matches: 389, Mismatches: 59, Indels: 55
0.77 0.12 0.11
Matches are distributed among these distances:
26 11 0.03
28 2 0.01
29 2 0.01
30 3 0.01
31 2 0.01
32 2 0.01
33 1 0.00
34 2 0.01
35 3 0.01
36 1 0.00
37 61 0.16
38 19 0.05
39 272 0.70
40 8 0.02
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.46
Consensus pattern (38 bp):
AGTTCTTCAGATTATGAACTCCTTTTCCTCTTCAGATG
Found at i:110503 original size:78 final size:78
Alignment explanation
Indices: 110273--110658 Score: 485
Period size: 78 Copynumber: 5.0 Consensus size: 78
110263 AGGTTGAATA
* * * * *
110273 AGTTCTTCAGACTATGAACTTCC-TCTTCCTCTTTAGATGAGTTCTTTAAACTATGAACTCATTT
1 AGTTCTTCAGATTATGAAC-TCCTTCTTCCTCTTTAGATGAGTTCTTCAGATTATGAACTCTTTT
*
110337 TTCCTCTTCAGACG
65 TTTCTCTTCAGACG
* * ** * * *
110351 AGTTCTTCATATTATGAACT--TTTTTTTTCTTTAGGTGAGTTTTTCAGATTATGAACTCCTTTT
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTTAGATGAGTTCTTCAGATTATGAACTCTTTTT
*
110414 TCCTCTTCAGACG
66 TTCTCTTCAGACG
* * * *
110427 ATTTCTTCATATTATGAACTCCTTCTTCCTCTTCAGATGAGTTCTTCAGATTATGAATTCTTTTT
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTTAGATGAGTTCTTCAGATTATGAACTCTTTTT
*
110492 TTCTCTTCAGACT
66 TTCTCTTCAGACG
* * *
110505 AGTTCTTCAGATTATGAACTACTTTTTCCTCTTCAGATGAGTTCTTCAGATTATGAACTCATTTT
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTTAGATGAGTTCTTCAGATTATGAACTC-TTTT
*
110570 TTT-TCTTCAGATG
65 TTTCTCTTCAGACG
* *
110583 AATTCTTCAGATTATGAACTCCTTCTTCCTCTTTAGATTAGTTCTTCAGATTATGAACT-TCTTT
1 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTTAGATGAGTTCTTCAGATTATGAACTCT-TTT
110647 TTTCTCTTCAGA
65 TTTCTCTTCAGA
110659 TTATGAACTC
Statistics
Matches: 268, Mismatches: 34, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
76 66 0.25
77 7 0.03
78 188 0.70
79 7 0.03
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (78 bp):
AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTTAGATGAGTTCTTCAGATTATGAACTCTTTTT
TTCTCTTCAGACG
Found at i:110558 original size:117 final size:117
Alignment explanation
Indices: 110273--110786 Score: 544
Period size: 117 Copynumber: 4.5 Consensus size: 117
110263 AGGTTGAATA
* * * * * * * *
110273 AGTTCTTCAGACTATGAACTTCC-TCTTCCTCTTTAGATGAGTTCTTTAAACTATGAACTCATTT
1 AGTTCTTCAGATTATGAAC-TCCTTTTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTT
* * *
110337 TTCCTCTTCAGACGAGTTCTTCATATTATGAACT-TTTTTTT-TCTTTAG-GT
65 TTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCTTTTTTTCTCTTCAGACT
* * * *
110387 GAGTTTTTCAGATTATGAACTCCTTTTTCCTCTTCAGACGATTTCTTCATATTATGAACTCCTTC
1 -AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTT
* *
110452 TTCCTCTTCAGATGAGTTCTTCAGATTATGAATTCTTTTTTTCTCTTCAGACT
65 TTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCTTTTTTTCTCTTCAGACT
* * *
110505 AGTTCTTCAGATTATGAACTACTTTTTCCTCTTCAGATGAGTTCTTCAGATTATGAACTCATTTT
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTTT
** * * * * * * *
110570 TTTTCTTCAGATGAATTCTTCAGATTATGAACTCCTTCTTCCTCTTTAGATT
66 TCCTCTTCAGACGAGTTCTTCAGATTATGAACTCTTTTTTTCTCTTCAGACT
*
110622 AGTTCTTCAGATTATGAACT--TCTTT--T-TT----C----TCTTCAGATTATGAACTCCTTTT
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTTT
* * * * *
110674 TCATCTTCAGACGAGTTCTTCAAATTATGAACTC-CTTTTT-TCTTCAAACG
66 TCCTCTTCAGACGAGTTCTTCAGATTATGAACTCTTTTTTTCTCTTCAGACT
* *
110724 AGTTCTTCAGATTATAAACTCCTTTTTCCTCTTCATACGAGTTCTTCAGATTATGAACTCCTT
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTT
110787 CTGAAAATGT
Statistics
Matches: 333, Mismatches: 49, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
102 25 0.08
103 3 0.01
104 55 0.17
106 1 0.00
107 2 0.01
111 1 0.00
112 2 0.01
113 1 0.00
114 3 0.01
115 105 0.32
116 7 0.02
117 127 0.38
118 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.46
Consensus pattern (117 bp):
AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTTT
TCCTCTTCAGACGAGTTCTTCAGATTATGAACTCTTTTTTTCTCTTCAGACT
Found at i:110658 original size:26 final size:26
Alignment explanation
Indices: 110625--110684 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
110615 TTAGATTAGT
*
110625 TCTTCAGATTATGAACTTCTTTTTTC-
1 TCTTCAGATTATGAAC-TCCTTTTTCA
110651 TCTTCAGATTATGAACTCCTTTTTCA
1 TCTTCAGATTATGAACTCCTTTTTCA
110677 TCTTCAGA
1 TCTTCAGA
110685 CGAGTTCTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 8 0.25
26 24 0.75
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.48
Consensus pattern (26 bp):
TCTTCAGATTATGAACTCCTTTTTCA
Found at i:110659 original size:104 final size:102
Alignment explanation
Indices: 110547--110758 Score: 280
Period size: 104 Copynumber: 2.1 Consensus size: 102
110537 TCAGATGAGT
** * *
110547 TCTTCAGATTATGAACTCATTTTTTTTCTTCAGATGAATTCTTCAGATTATGAACTCCTTCTTCC
1 TCTTCAGATTATGAACTCATTTTTCATCTTCAGACGAATTCTTCAAATTATGAACTCCTT-TT-C
* * ** * * *
110612 TCTTTAGATTAGTTCTTCAGATTATGAACTTCTTTTTTC
64 TCTTCAAACGAGTTCTTCAGATTATAAACTCCTTTTTCC
* * *
110651 TCTTCAGATTATGAACTCCTTTTTCATCTTCAGACGAGTTCTTCAAATTATGAACTCCTTTTTTC
1 TCTTCAGATTATGAACTCATTTTTCATCTTCAGACGAATTCTTCAAATTATGAACTCCTTTTCTC
110716 TTCAAACGAGTTCTTCAGATTATAAACTCCTTTTTCC
66 TTCAAACGAGTTCTTCAGATTATAAACTCCTTTTTCC
110753 TCTTCA
1 TCTTCA
110759 TACGAGTTCT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
102 38 0.40
103 2 0.02
104 54 0.57
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (102 bp):
TCTTCAGATTATGAACTCATTTTTCATCTTCAGACGAATTCTTCAAATTATGAACTCCTTTTCTC
TTCAAACGAGTTCTTCAGATTATAAACTCCTTTTTCC
Found at i:110991 original size:45 final size:45
Alignment explanation
Indices: 110837--111087 Score: 299
Period size: 45 Copynumber: 5.5 Consensus size: 45
110827 TTACTATTTC
*
110837 AAAACAT-CTGGCACTG-ATGGTCTTATGGATGACCCGAATGCTTTTTTG
1 AAAACATCCT-GCACTGTA-GGTCTTATGGATGACCCGAA-G--GTTTTG
* * *
110885 AAATCATCCTACACTGTAGGTCTTATGGATAACCCGAAGGCTTTTTG
1 AAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGG--TTTTG
110932 AAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTG
1 AAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTG
* *
110977 AAAACATCCTGCACTGTAGGTCTTATGGATGACTCGAAGGTTTTA
1 AAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTG
* * * ** *
111022 AAAACATCCTGCAATGAACGTCTTACAGATGACTCGAAGGTTTTG
1 AAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTG
* *
111067 AAAACATCATGCACTGAAGGT
1 AAAACATCCTGCACTGTAGGT
111088 TTTACAGATG
Statistics
Matches: 181, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
45 105 0.58
47 43 0.24
48 30 0.17
49 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (45 bp):
AAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTG
Found at i:111667 original size:22 final size:22
Alignment explanation
Indices: 111610--111667 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
111600 AATAAAGTTT
* *
111610 TCATCTTTGAAAAGATAATCTA
1 TCATCTTTGAAGAGAGAATCTA
*
111632 TCATCTTTGTAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
111654 TCATCTTTGAAGAG
1 TCATCTTTGAAGAG
111668 TGTAGATGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:115336 original size:72 final size:72
Alignment explanation
Indices: 115210--115353 Score: 218
Period size: 72 Copynumber: 2.0 Consensus size: 72
115200 ATATAATTGT
* * *
115210 ATAATAGGCTAGCTGAATATTATCCATAAAGCCGGGGTGATTAACCAATTGCTTTATGGGGACAA
1 ATAACAGGCTAGCTGAATATTATCCATAAAGCCGGGCTGATTAACCAATTGCTTTAGGGGGACAA
115275 CTCAAGC
66 CTCAAGC
* * *
115282 ATAACAGGTTAGCTGAATATTATTCATAAAGCCAGGGCT-ATTAACCAATTGCTTTAGGGGGATA
1 ATAACAGGCTAGCTGAATATTATCCATAAAGCC-GGGCTGATTAACCAATTGCTTTAGGGGGACA
115346 ACTCAAGC
65 ACTCAAGC
115354 TTTATTGTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 61 0.94
73 4 0.06
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (72 bp):
ATAACAGGCTAGCTGAATATTATCCATAAAGCCGGGCTGATTAACCAATTGCTTTAGGGGGACAA
CTCAAGC
Found at i:117827 original size:12 final size:12
Alignment explanation
Indices: 117810--117842 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
117800 ACAAAGATGC
*
117810 AAATGTAAATGG
1 AAATGTAAATGA
117822 AAATGTAAATGA
1 AAATGTAAATGA
117834 AAATGTAAA
1 AAATGTAAA
117843 AATGTGGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (12 bp):
AAATGTAAATGA
Found at i:118040 original size:43 final size:42
Alignment explanation
Indices: 117967--118048 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 42
117957 TACATCAAAT
*
117967 AAAACTTTACATACAGGGATAGATTTCACTCCTAACTTCAAC
1 AAAACTTTACATACAGGGATAGACTTCACTCCTAACTTCAAC
*
118009 AAAACTTTACATATATGGGATA-ACCTTCACTCCTAACTTC
1 AAAACTTTACATACA-GGGATAGA-CTTCACTCCTAACTTC
118049 TCTAAAGCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 15 0.42
43 21 0.58
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (42 bp):
AAAACTTTACATACAGGGATAGACTTCACTCCTAACTTCAAC
Found at i:121832 original size:3 final size:3
Alignment explanation
Indices: 121824--121861 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
121814 TAAAATTATT
*
121824 TAA TAA TAA GAA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
121862 ATGGGCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:123115 original size:2 final size:2
Alignment explanation
Indices: 123108--123152 Score: 72
Period size: 2 Copynumber: 22.0 Consensus size: 2
123098 ATATAACCCC
*
123108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CGT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
123151 AT
1 AT
123153 CGTAATACAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 39 0.98
3 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:123575 original size:34 final size:34
Alignment explanation
Indices: 123532--123628 Score: 167
Period size: 34 Copynumber: 2.9 Consensus size: 34
123522 ATGTATATGT
123532 CACTAATAAGTCAAAGTTAAGATGTCTTACATGC
1 CACTAATAAGTCAAAGTTAAGATGTCTTACATGC
* *
123566 CACTAATAAGTCAAAGTTATGATATCTTACATGC
1 CACTAATAAGTCAAAGTTAAGATGTCTTACATGC
*
123600 CACTAATAAGTCAAAGTTAGGATGTCTTA
1 CACTAATAAGTCAAAGTTAAGATGTCTTA
123629 ATCATATAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (34 bp):
CACTAATAAGTCAAAGTTAAGATGTCTTACATGC
Found at i:123714 original size:31 final size:31
Alignment explanation
Indices: 123676--123743 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
123666 AACTAATCTG
123676 ATTTCAGTAAGTAATTAGGAAGTTCATTGTT
1 ATTTCAGTAAGTAATTAGGAAGTTCATTGTT
*
123707 ATTTCAGTAAGTATTTAGGAAGTTCATTGTT
1 ATTTCAGTAAGTAATTAGGAAGTTCATTGTT
*
123738 GTTTCA
1 ATTTCA
123744 TATCCAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.44
Consensus pattern (31 bp):
ATTTCAGTAAGTAATTAGGAAGTTCATTGTT
Found at i:124242 original size:15 final size:16
Alignment explanation
Indices: 124218--124250 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
124208 TCATAATTTC
124218 ATCAAAATTA-CAATA
1 ATCAAAATTAGCAATA
*
124233 ATCAACATTAGCAATA
1 ATCAAAATTAGCAATA
124249 AT
1 AT
124251 ATACTTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (16 bp):
ATCAAAATTAGCAATA
Found at i:124693 original size:119 final size:117
Alignment explanation
Indices: 124455--124802 Score: 426
Period size: 119 Copynumber: 2.9 Consensus size: 117
124445 TCAGAATATG
* *
124455 TAAGCACACATAATGTTATCATATCAGAATCGTAATGTGCAGACAAAGTGCAATCAGATCAGAAT
1 TAAGCACACATAATGTTATCATATCAGAATCATAATGTGCACACAAAGTGCAATCAGATCA-AAT
* * * *
124520 ATATATACTAGTGCTCCCACAAGTACACCATAGTATATCAGAATCGGAATATA
65 ATATATACTAGTGCACCCACAGGTACACCACAGTATATCAGAATCGGAACATA
* * * * * *
124573 TAAGCACACACAATATTATCATATCATAATCATAATGTGCACACAAAGAGAAATTAGATCAATAT
1 TAAGCACACATAATGTTATCATATCAGAATCATAATGTGCACACAAAGTGCAATCAGATCAA-AT
* *
124638 ATTATATACTAGTGCACCCACCGGTACACCACAGTATATCAGAATCGTAACATA
65 A-TATATACTAGTGCACCCACAGGTACACCACAGTATATCAGAATCGGAACATA
* * * * * *
124692 TATGCAAACATAATGCTATCATATCAGAATCATAATATGCACACAAAGTGCAATCACATCAAAAA
1 TAAGCACACATAATGTTATCATATCAGAATCATAATGTGCACACAAAGTGCAATCAGATC-AAAT
* ** * *
124757 ATATATACTAGTGTACCTTCAGGTAACACCCCAGTATATCATAATC
65 ATATATACTAGTGCACCCACAGGT-ACACCACAGTATATCAGAATC
124803 ACTTCATCTC
Statistics
Matches: 194, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
117 1 0.01
118 75 0.39
119 116 0.60
120 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (117 bp):
TAAGCACACATAATGTTATCATATCAGAATCATAATGTGCACACAAAGTGCAATCAGATCAAATA
TATATACTAGTGCACCCACAGGTACACCACAGTATATCAGAATCGGAACATA
Found at i:131430 original size:15 final size:16
Alignment explanation
Indices: 131406--131438 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
131396 TCAAAATTTC
131406 ATCAAAATCAA-AATA
1 ATCAAAATCAACAATA
*
131421 ATCAACATCAACAATA
1 ATCAAAATCAACAATA
131437 AT
1 AT
131439 ATATTTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (16 bp):
ATCAAAATCAACAATA
Found at i:131850 original size:118 final size:118
Alignment explanation
Indices: 131625--131987 Score: 476
Period size: 118 Copynumber: 3.1 Consensus size: 118
131615 CAGTGCTATC
* * * *
131625 ATCATAATCAGAA-ATATAAGCACACACAGTGCTATCATATTAGAATCGTAATGTGTACACAAAG
1 ATCAGAATCGGAACATATAAGCACACACAGTGCTATCATATCAGAATCGTAATGTGCACACAAAG
* *
131689 TGCAATCAGATCATAATATATATACTAGTACACCCACCTGTACACCACAATAT
66 TGCAATCAGATCAGAATATATATACTAGTACACCCACCGGTACACCACAATAT
* ** * * *
131742 ATTAGAATCGGAATGTATAAGCACACACAGTACTATCATATCATAATCGTAATGTCCACACAAAG
1 ATCAGAATCGGAACATATAAGCACACACAGTGCTATCATATCAGAATCGTAATGTGCACACAAAG
* *
131807 TGCAATCAGATCAGAATATATATACTAGTGCACCCACCGGTACACCACAGTAT
66 TGCAATCAGATCAGAATATATATACTAGTACACCCACCGGTACACCACAATAT
* * ** *
131860 ATCATAATCGTAACATATAAATACACTCAGTGCTATCATATCAGAATCGTAATGTGCACACAAAG
1 ATCAGAATCGGAACATATAAGCACACACAGTGCTATCATATCAGAATCGTAATGTGCACACAAAG
* * ** * * *
131925 TGCAATCACATCAGAATATATATACTAGTATACCTTCAGGTACTCCCCCAATAT
66 TGCAATCAGATCAGAATATATATACTAGTACACCCACCGGTAC-ACCACAATAT
131979 ATCAGAATC
1 ATCAGAATC
131988 ACTCCACCTC
Statistics
Matches: 210, Mismatches: 34, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
117 10 0.05
118 185 0.88
119 15 0.07
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (118 bp):
ATCAGAATCGGAACATATAAGCACACACAGTGCTATCATATCAGAATCGTAATGTGCACACAAAG
TGCAATCAGATCAGAATATATATACTAGTACACCCACCGGTACACCACAATAT
Found at i:134584 original size:224 final size:220
Alignment explanation
Indices: 134190--134594 Score: 632
Period size: 224 Copynumber: 1.8 Consensus size: 220
134180 TTTCCCTTTC
*
134190 CAACGTTGCCCATGCCATTTTCCAAAAATTTCAATCTTGTCATTTTTCATCCAACTATCCAAAAC
1 CAACGTTGCCCATGCCATTTTCCAAAAATTTCAATCTTGTCATTTTTCATCCAACGATCCAAAAC
* * * *
134255 ATGGAAATAAATTCACAAATCCAATTCTCCATATTATTTTCCATCATTCTAAATTATGGAAATAT
66 ATGGAAATAAATTCACAAATCCAATGCTCCACATTATTTTCCATCATTCTAAAATATGGAAATAA
* *
134320 TATTTTTAATATTAATTTATCATCCTTCAAATTTTCTAAAAATTTCTATTCGATATTGCTATTTT
131 TATTTTTAATACTAATTTATCATCCTTCAAATTCTCTAAAAATTTCTATTCGATATTGCTATTTT
134385 TCAAAAATTTCAATACTGCCTTTTA
196 TCAAAAATTTCAATACTGCCTTTTA
* *
134410 CAACTTTGCCCATGCCATTTTCCAAAAATTTCAATCTTG-CTATTTTTCATCCAACGGTCCAAAT
1 CAACGTTGCCCATGCCATTTTCCAAAAATTTCAATCTTGTC-ATTTTTCATCCAACGATCC-AA-
* * *
134474 TGAACATGGAAATAAATTCTCAAATCCAATGCTCCACGTTATTTTCCATCATTCTAAAATATTGA
63 --AACATGGAAATAAATTCACAAATCCAATGCTCCACATTATTTTCCATCATTCTAAAATATGGA
* *
134539 AATAATATTTTTAATCCTAATTTATCATCCTTTAAATTCTCTAAAAATTTCTATTC
126 AATAATATTTTTAATACTAATTTATCATCCTTCAAATTCTCTAAAAATTTCTATTC
134595 AATCTGATTT
Statistics
Matches: 166, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
219 1 0.01
220 55 0.33
221 2 0.01
224 108 0.65
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.40
Consensus pattern (220 bp):
CAACGTTGCCCATGCCATTTTCCAAAAATTTCAATCTTGTCATTTTTCATCCAACGATCCAAAAC
ATGGAAATAAATTCACAAATCCAATGCTCCACATTATTTTCCATCATTCTAAAATATGGAAATAA
TATTTTTAATACTAATTTATCATCCTTCAAATTCTCTAAAAATTTCTATTCGATATTGCTATTTT
TCAAAAATTTCAATACTGCCTTTTA
Found at i:135209 original size:14 final size:14
Alignment explanation
Indices: 135192--135218 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
135182 CGTTCGGTTA
135192 TGTTCGTTTATGTG
1 TGTTCGTTTATGTG
135206 TGTTCGTTTATGT
1 TGTTCGTTTATGT
135219 TCATTCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.07, G:0.26, T:0.59
Consensus pattern (14 bp):
TGTTCGTTTATGTG
Found at i:135746 original size:11 final size:12
Alignment explanation
Indices: 135730--135759 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
135720 TGGGGCAATG
135730 TCGAGCTT-GAA
1 TCGAGCTTAGAA
135741 TCGAGCTTAGAA
1 TCGAGCTTAGAA
135753 TCGAGCT
1 TCGAGCT
135760 CGAGTCTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (12 bp):
TCGAGCTTAGAA
Found at i:136004 original size:16 final size:16
Alignment explanation
Indices: 135980--136012 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
135970 CCAACGTTTA
*
135980 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
135996 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
136012 T
1 T
136013 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:137564 original size:21 final size:22
Alignment explanation
Indices: 137538--137581 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
137528 AGAGAGAAAA
*
137538 GGTTGAACCTT-GCAACTTCAT
1 GGTTGAACCTTACCAACTTCAT
137559 GGTTGAACCTTACCAACTTCAT
1 GGTTGAACCTTACCAACTTCAT
137581 G
1 G
137582 AGTCATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (22 bp):
GGTTGAACCTTACCAACTTCAT
Found at i:140446 original size:26 final size:26
Alignment explanation
Indices: 140413--140472 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
140403 TAGGAAAGAG
140413 GAGGAAGAGACGGTAAAGATTTGAGA
1 GAGGAAGAGACGGTAAAGATTTGAGA
140439 GAGGAAGAGACGGTAAAGATTTGAGA
1 GAGGAAGAGACGGTAAAGATTTGAGA
140465 GAGGAAGA
1 GAGGAAGA
140473 AGAAAACAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.43, C:0.03, G:0.40, T:0.13
Consensus pattern (26 bp):
GAGGAAGAGACGGTAAAGATTTGAGA
Found at i:141690 original size:17 final size:17
Alignment explanation
Indices: 141654--141689 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
141644 ATTGGCATTC
141654 AAATATGTATTATATAA
1 AAATATGTATTATATAA
141671 AAATATGTA-TATATAA
1 AAATATGTATTATATAA
141687 AAA
1 AAA
141690 AATTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATATGTATTATATAA
Found at i:145406 original size:13 final size:12
Alignment explanation
Indices: 145372--145436 Score: 57
Period size: 13 Copynumber: 5.4 Consensus size: 12
145362 ATTCATATTC
145372 AAGACAAAAAGA-
1 AAGA-AAAAAGAG
*
145384 AAAAAGAAAATGAG
1 AAGAA-AAAA-GAG
145398 AAGAAAAAAGAG
1 AAGAAAAAAGAG
145410 AAAGAAAAAA-AG
1 -AAGAAAAAAGAG
145422 -AGAAAAAA-AG
1 AAGAAAAAAGAG
145432 AAGAA
1 AAGAA
145437 CAAATAAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
10 10 0.22
11 5 0.11
12 12 0.26
13 15 0.33
14 4 0.09
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (12 bp):
AAGAAAAAAGAG
Found at i:145413 original size:24 final size:24
Alignment explanation
Indices: 145372--145455 Score: 66
Period size: 24 Copynumber: 3.5 Consensus size: 24
145362 ATTCATATTC
* **
145372 AAGACAAAAAGAAAAAAGAAAATGAG
1 AAGA-AAAAAG-AGAAAGAAAAAAAG
145398 AAGAAAAAAGAGAAAGAAAAAAAG
1 AAGAAAAAAGAGAAAGAAAAAAAG
145422 -AGAAAAAA-AG-AAGAACAAATAAG
1 AAGAAAAAAGAGAAAGAA-AAA-AAG
* *
145445 AACAAATAAGA
1 AAGAAAAAAGA
145456 AATAGAACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
21 5 0.10
22 5 0.10
23 11 0.22
24 17 0.35
25 7 0.14
26 4 0.08
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.04
Consensus pattern (24 bp):
AAGAAAAAAGAGAAAGAAAAAAAG
Found at i:145419 original size:26 final size:25
Alignment explanation
Indices: 145372--145436 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
145362 ATTCATATTC
*
145372 AAGACAAAAAGAAAAAAGAAAATGAG
1 AAGA-AAAAAGAAAAAAGAAAAAGAG
145398 AAGAAAAAAGAGAAAGAA-AAAAAGAG
1 AAGAAAAAAGA-AAA-AAGAAAAAGAG
*
145424 AAAAAAAGAAGAA
1 AAGAAAA-AAGAA
145437 CAAATAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 7 0.21
26 21 0.62
27 6 0.18
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (25 bp):
AAGAAAAAAGAAAAAAGAAAAAGAG
Found at i:145445 original size:10 final size:10
Alignment explanation
Indices: 145432--145456 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
145422 AGAAAAAAAG
145432 AAGAACAAAT
1 AAGAACAAAT
145442 AAGAACAAAT
1 AAGAACAAAT
145452 AAGAA
1 AAGAA
145457 ATAGAACATG
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:0.72, C:0.08, G:0.12, T:0.08
Consensus pattern (10 bp):
AAGAACAAAT
Found at i:145445 original size:13 final size:11
Alignment explanation
Indices: 145383--145446 Score: 60
Period size: 13 Copynumber: 5.6 Consensus size: 11
145373 AGACAAAAAG
145383 AAAA-AAGAAA
1 AAAAGAAGAAA
**
145393 ATGAGAAGAAA
1 AAAAGAAGAAA
145404 AAAGAGAAAGAAA
1 AAA-AG-AAGAAA
145417 AAAAG-AGAAA
1 AAAAGAAGAAA
145427 AAAAGAAGAACA
1 AAAAGAAGAA-A
145439 AATAAGAA
1 AA-AAGAA
145447 CAAATAAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
10 12 0.27
11 11 0.25
12 7 0.16
13 14 0.32
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.03
Consensus pattern (11 bp):
AAAAGAAGAAA
Found at i:147082 original size:45 final size:45
Alignment explanation
Indices: 146948--147565 Score: 685
Period size: 45 Copynumber: 14.0 Consensus size: 45
146938 GAAACCTCAA
** * * * *
146948 CTTGACTTTCTCATGAAAAAGAGTGAATCTTTTAGTGATGTCATT
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATT
* *
146993 ATTGACTTTCTCGCGATA-A--TGTCAACCTTTTAGTGATGTCATT
1 CTTGACTTTCTCGCGA-AGAGGAGTCAACCTTTTAGTGATGTCATT
* * * *
147036 CTTGACTTTCTCGCGAAGAGGAGTCGACCTTTTAATAATGTTATT
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATT
* *
147081 CTTGGCTTTCTCGTGAAGAGGAGTCAACCTTTTAGT-A----A--
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATT
* * *
147119 C--G--TTTCTCGTGAAGAGGAGTCAACCTTTTAGTGACGTGATT
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATT
* *
147160 CTTGACTTTCTCACGAAGATGAGTCAACCTTTTAGTGATGTCATT
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATT
* * * *
147205 CTTGACTTTATCGTGAAGAGGAGTAAACCTTTTAGTGAAGTCATT
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATT
* *** * *
147250 ATTGACTTTCTCATTAAGAGGAGTTAACCTTTTAGTGATTTCATT
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATT
* *
147295 ATTGACTTTCTCGC-AATGAGGAATCAACCTTTTAGTGATGTCATT
1 CTTGACTTTCTCGCGAA-GAGGAGTCAACCTTTTAGTGATGTCATT
* *
147340 CTTGACTTTCTCGTGAAGAGGAGTCAACCTTTTAGTGATGTTATT
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATT
*
147385 CTTGAC-TTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTTATT
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATT
* * * **
147429 CTTGACTTTCTCACAAAGAGGAGTCAACATTTTAGTGATGTGGTT
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATT
* * * *
147474 TTTGACTTTCTCGCAAAGAGGA-TCCAACCTTTAAATGATGTCATT
1 CTTGACTTTCTCGCGAAGAGGAGT-CAACCTTTTAGTGATGTCATT
**
147519 CTTGACTTTCTCATGAAGAGGAGTCAACCTTTTAGTGATGTCATT
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATT
147564 CT
1 CT
147566 CAACTTAACT
Statistics
Matches: 491, Mismatches: 62, Indels: 40
0.83 0.10 0.07
Matches are distributed among these distances:
34 30 0.06
35 1 0.00
36 1 0.00
38 1 0.00
39 1 0.00
40 1 0.00
41 1 0.00
42 1 0.00
43 38 0.08
44 47 0.10
45 365 0.74
46 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (45 bp):
CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTCATT
Found at i:147130 original size:34 final size:34
Alignment explanation
Indices: 147087--147155 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
147077 TATTCTTGGC
147087 TTTCTCGTGAAGAGGAGTCAACCTTTTAGTAACG
1 TTTCTCGTGAAGAGGAGTCAACCTTTTAGTAACG
*
147121 TTTCTCGTGAAGAGGAGTCAACCTTTTAGTGACG
1 TTTCTCGTGAAGAGGAGTCAACCTTTTAGTAACG
147155 T
1 T
147156 GATTCTTGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (34 bp):
TTTCTCGTGAAGAGGAGTCAACCTTTTAGTAACG
Found at i:147487 original size:179 final size:180
Alignment explanation
Indices: 147121--147565 Score: 633
Period size: 179 Copynumber: 2.5 Consensus size: 180
147111 TTTAGTAACG
** * * * * *
147121 TTTCTCGTGAAGAGGAGTCAACCTTTTAGTGACGTGATTCTTGACTTTCTCACGAAGATGAGTCA
1 TTTCTCGCAAAGAGGAATCAACCTTTTAGTGATGTCATTCTTGACTTTCTCATGAAGAGGAGTCA
*
147186 ACCTTTTAGTGATGTCATTCTTGACTTTATCGTGAAGAGGAGTAAACCTTTTAGTGAAGTCATTA
66 ACCTTTTAGTGATGTCATTCTTGACTTTATCGCGAAGAGGAGTAAACCTTTTAGTGAAGTCATTA
** * * *
147251 TTGACTTTCTCATTAAGAGGAGTTAACCTTTTAGTGATTTCATTATTGAC
131 TTGACTTTCTCACAAAGAGGAGTCAACATTTTAGTGATGTCATTATTGAC
* *
147301 TTTCTCGCAATGAGGAATCAACCTTTTAGTGATGTCATTCTTGACTTTCTCGTGAAGAGGAGTCA
1 TTTCTCGCAAAGAGGAATCAACCTTTTAGTGATGTCATTCTTGACTTTCTCATGAAGAGGAGTCA
* * * * * *
147366 ACCTTTTAGTGATGTTATTCTTGAC-TTCTCGCGAAGAGGAGTCAACCTTTTAGTGATGTTATTC
66 ACCTTTTAGTGATGTCATTCTTGACTTTATCGCGAAGAGGAGTAAACCTTTTAGTGAAGTCATTA
** *
147430 TTGACTTTCTCACAAAGAGGAGTCAACATTTTAGTGATGTGGTTTTTGAC
131 TTGACTTTCTCACAAAGAGGAGTCAACATTTTAGTGATGTCATTATTGAC
* *
147480 TTTCTCGCAAAGAGG-ATCCAACCTTTAAATGATGTCATTCTTGACTTTCTCATGAAGAGGAGTC
1 TTTCTCGCAAAGAGGAAT-CAACCTTTTAGTGATGTCATTCTTGACTTTCTCATGAAGAGGAGTC
147544 AACCTTTTAGTGATGTCATTCT
65 AACCTTTTAGTGATGTCATTCT
147566 CAACTTAACT
Statistics
Matches: 235, Mismatches: 29, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
178 2 0.01
179 153 0.65
180 80 0.34
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (180 bp):
TTTCTCGCAAAGAGGAATCAACCTTTTAGTGATGTCATTCTTGACTTTCTCATGAAGAGGAGTCA
ACCTTTTAGTGATGTCATTCTTGACTTTATCGCGAAGAGGAGTAAACCTTTTAGTGAAGTCATTA
TTGACTTTCTCACAAAGAGGAGTCAACATTTTAGTGATGTCATTATTGAC
Found at i:148825 original size:106 final size:106
Alignment explanation
Indices: 148636--148836 Score: 285
Period size: 106 Copynumber: 1.9 Consensus size: 106
148626 TGAAGTGCAG
* * *** *
148636 TGAAGTGAATCAAAGTTTACATATCTGATCTACCCTGAAGAGTAGTTGAGCAGATCCCTTTTTCC
1 TGAAGTGAATCAAAGTTTACAAATCTGATCTACCCTGAAGAGCAAAGGAGCAGATCCCCTTTTCC
* *
148701 ATATTTGATATTCTTTGAAGAGAAGTGAAGACAATCTTCCA
66 AGATTTGATATTCCTTGAAGAGAAGTGAAGACAATCTTCCA
* * *
148742 TGAAGTGAATCAAAGTTTTCAAATCTGATCTACCTTGAAGAGCAAAGGAGCATATCCCCTTTTCC
1 TGAAGTGAATCAAAGTTTACAAATCTGATCTACCCTGAAGAGCAAAGGAGCAGATCCCCTTTTCC
* *
148807 AGATTTGATCTTCCTTGAAGAGCAGTGAAG
66 AGATTTGATATTCCTTGAAGAGAAGTGAAG
148837 TAAATCAACC
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
106 82 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (106 bp):
TGAAGTGAATCAAAGTTTACAAATCTGATCTACCCTGAAGAGCAAAGGAGCAGATCCCCTTTTCC
AGATTTGATATTCCTTGAAGAGAAGTGAAGACAATCTTCCA
Found at i:150234 original size:22 final size:21
Alignment explanation
Indices: 150209--150250 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
150199 GATGAGAGAG
*
150209 TTAAAAAAAAATGAAATGAAAA
1 TTAAAAAAAAAGGAAA-GAAAA
*
150231 TTAAGAAAAAAGGAAAGAAA
1 TTAAAAAAAAAGGAAAGAAA
150251 TGAGGCCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (21 bp):
TTAAAAAAAAAGGAAAGAAAA
Found at i:153011 original size:20 final size:18
Alignment explanation
Indices: 152982--153021 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
152972 TTGATAAAAA
*
152982 TTTTATAAAAATATTAATT
1 TTTTATAAAAA-ATAAATT
153001 TTTTAATAAAAAATAAATT
1 TTTT-ATAAAAAATAAATT
153020 TT
1 TT
153022 AACGTGTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTATAAAAAATAAATT
Found at i:153021 original size:17 final size:19
Alignment explanation
Indices: 152979--153023 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
152969 TCATTGATAA
152979 AAATTTT-ATAAAAATATT
1 AAATTTTAATAAAAATATT
*
152997 AATTTTTTAATAAAAA-A-T
1 AA-ATTTTAATAAAAATATT
153015 AAATTTTAA
1 AAATTTTAA
153024 CGTGTCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 6 0.26
18 5 0.22
19 5 0.22
20 7 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTTTAATAAAAATATT
Found at i:153792 original size:25 final size:25
Alignment explanation
Indices: 153748--153799 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
153738 ATTTTTGCTT
153748 TGATAAATATTTCTTTCGTTTAGTTA
1 TGATAAATATTTCTTTCGTTTA-TTA
153774 TGATAAATA-TTCTTTCGTTTATTA
1 TGATAAATATTTCTTTCGTTTATTA
153798 TG
1 TG
153800 CATGTTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 5 0.19
25 12 0.46
26 9 0.35
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.54
Consensus pattern (25 bp):
TGATAAATATTTCTTTCGTTTATTA
Found at i:155871 original size:21 final size:21
Alignment explanation
Indices: 155838--155879 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
155828 AGTATTTTAT
* *
155838 GATACATTGGATTTTGAGATA
1 GATACATTAGATTGTGAGATA
*
155859 GATATATTAGATTGTGAGATA
1 GATACATTAGATTGTGAGATA
155880 TAGAGAATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.38
Consensus pattern (21 bp):
GATACATTAGATTGTGAGATA
Found at i:156463 original size:23 final size:22
Alignment explanation
Indices: 156424--156468 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
156414 TAAAATACCA
156424 AAATAAAAATGAGTAAAATAATG
1 AAATAAAAATGAGTAAAA-AATG
*
156447 AAATAAATATGCA-TAAAAAATG
1 AAATAAAAATG-AGTAAAAAATG
156469 TCAAGGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 15 0.75
24 1 0.05
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.22
Consensus pattern (22 bp):
AAATAAAAATGAGTAAAAAATG
Found at i:156537 original size:22 final size:22
Alignment explanation
Indices: 156480--156547 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 22
156470 CAAGGAAAAA
*
156480 AAAGAAATAAAAATAGATAAATAATT
1 AAAGAAAT--AAATA-ATAAA-AATG
156506 AAAGAAATAAATAATAAAAATG
1 AAAGAAATAAATAATAAAAATG
*
156528 AAAGATATAACA-AATAAAAA
1 AAAGAAATAA-ATAATAAAAA
156548 GTTCATAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 20 0.51
23 6 0.15
24 5 0.13
26 8 0.21
ACGTcount: A:0.72, C:0.01, G:0.07, T:0.19
Consensus pattern (22 bp):
AAAGAAATAAATAATAAAAATG
Found at i:156662 original size:27 final size:25
Alignment explanation
Indices: 156632--156684 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 25
156622 AGATATATAC
156632 ACATAATA-ATATACTATAAATAATAAA
1 ACATAATATAT-TAC-ATAAA-AATAAA
156659 ACATAATATATTACATAAAAATAAA
1 ACATAATATATTACATAAAAATAAA
156684 A
1 A
156685 AATTAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 7 0.28
26 5 0.20
27 11 0.44
28 2 0.08
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (25 bp):
ACATAATATATTACATAAAAATAAA
Found at i:158219 original size:25 final size:27
Alignment explanation
Indices: 158173--158252 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 27
158163 AATTTCAAAG
158173 GTTTCAAGAGAAAC-ATTC-AAGGTTT
1 GTTTCAAGAGAAACAATTCAAAGGTTT
158198 GTTT-AAG-GAAACAATTCAAAGGTTTGT
1 GTTTCAAGAGAAACAATTCAAAGG-TT-T
*
158225 GTTTCAAGAGAAACATTTTCAAAGGTTT
1 GTTTCAAGAGAAACA-ATTCAAAGGTTT
158253 TTTTTGTGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 11
0.80 0.02 0.19
Matches are distributed among these distances:
23 5 0.11
24 7 0.15
25 8 0.17
26 2 0.04
27 5 0.11
28 4 0.09
29 8 0.17
30 8 0.17
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (27 bp):
GTTTCAAGAGAAACAATTCAAAGGTTT
Found at i:158260 original size:35 final size:35
Alignment explanation
Indices: 158220--158308 Score: 160
Period size: 35 Copynumber: 2.5 Consensus size: 35
158210 AATTCAAAGG
* *
158220 TTTGTGTTTCAAGAGAAACATTTTCAAAGGTTTTT
1 TTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTCT
158255 TTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTCT
1 TTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTCT
158290 TTTGTGTTTCAAGAGAAAC
1 TTTGTGTTTCAAGAGAAAC
158309 TGTCTCAAGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (35 bp):
TTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTCT
Found at i:158391 original size:66 final size:66
Alignment explanation
Indices: 158293--158604 Score: 312
Period size: 65 Copynumber: 4.6 Consensus size: 66
158283 GGTTTCTTTT
*
158293 GTGTTTCAAGAGAAACTGTCTCAAGGGTGACAAAATTTTGTTTTAAGAAAAACATATTCAAAGAT
1 GTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTTAAGAAAAACATATTCAAAGAT
158358 TG
65 TG
158360 GTGTTTCAAGAGAAA-TGTCTCAAGGGAGACAAAATTTGTTTTAAGAAAAACATATTCAAAGATT
1 GTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGAAAAACATATTCAAAGATT
158424 G
66 G
* * ** *
158425 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAAC-TGTCTCAAGAG
1 GTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTTAAGAAAAACATAT-TC-A-A-
*
158489 AGACAAAAT-
61 AG----ATTG
* * * * * * *
158498 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTCCAA-AGAAAATAGATTCAAAGA
1 GTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTT-TAAGA-AAAACATATTCAAAGA
158562 TT-
64 TTG
* * * *
158564 -TTTTTCAAGGGAAACCGTCTCAAGAGAGACAAAATTTGTTT
1 GTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTT
158605 CAAGGGAAAC
Statistics
Matches: 211, Mismatches: 21, Indels: 28
0.81 0.08 0.11
Matches are distributed among these distances:
65 82 0.39
66 40 0.19
67 31 0.15
68 1 0.00
69 1 0.00
70 4 0.02
71 1 0.00
72 6 0.03
73 42 0.20
74 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (66 bp):
GTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGAAAAACATATTCAAAGATT
G
Found at i:158513 original size:36 final size:36
Alignment explanation
Indices: 158426--158705 Score: 303
Period size: 36 Copynumber: 7.9 Consensus size: 36
158416 CAAAGATTGG
158426 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
158463 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
158499 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
158535 TATTTCCAA-AGAAAATAGAT-TC-A-A-AG-----ATT
1 TGTTT-CAAGAGAAACT-G-TCTCAAGAGAGACAAAATT
* * *
158564 TTTTTCAAGGGAAACCGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
158600 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
158636 TGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
158673 AGTTCCAA-AGAAAACTGTCTCAAGGGAGACAAA
1 TGTTTCAAGAG-AAACTGTCTCAAGAGAGACAAA
158706 TTTTTACAGT
Statistics
Matches: 206, Mismatches: 22, Indels: 30
0.80 0.09 0.12
Matches are distributed among these distances:
27 1 0.00
28 6 0.03
29 11 0.05
30 1 0.00
31 2 0.01
34 2 0.01
35 1 0.00
36 113 0.55
37 68 0.33
38 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:158643 original size:137 final size:139
Alignment explanation
Indices: 158361--158687 Score: 484
Period size: 137 Copynumber: 2.4 Consensus size: 139
158351 CAAAGATTGG
* * * * *
158361 TGTTTCAAGAGAAA-TGTCTCAAGGGAGACAAAATTTGTTT--TAAGAAAAACATATTCAAAGAT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTCCAAAG-AAAACAGATTCAAAGAT
* *
158423 TGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGA
65 T-GTGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTATCTCAAGA
158488 GAGACAAAATA
129 GAGACAAAATA
*
158499 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTCCAAAGAAAATAGATTCAAAGATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTCCAAAGAAAACAGATTCAAAGATT
* *
158564 -TTTTTCAAGGGAAACCGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGA
66 GTGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTATCTCAAGAGA
*
158627 GACAAAATT
131 GACAAAATA
* *
158636 TGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAGAAAAC
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTCCAAAGAAAAC
158688 TGTCTCAAGG
Statistics
Matches: 172, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
137 85 0.49
138 45 0.26
139 23 0.13
140 16 0.09
141 3 0.02
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (139 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTCCAAAGAAAACAGATTCAAAGATT
GTGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTATCTCAAGAGA
GACAAAATA
Found at i:158645 original size:21 final size:21
Alignment explanation
Indices: 158583--158645 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
158573 GGAAACCGTC
158583 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
* * *
158604 TCAAG-G-G---AAA-CTATC
1 TCAAGAGAGACAAAATTTGTT
158619 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
158640 TCAAGA
1 TCAAGA
158646 AAAACTGTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
15 7 0.23
16 4 0.13
17 1 0.03
19 1 0.03
20 4 0.13
21 13 0.43
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:158814 original size:36 final size:36
Alignment explanation
Indices: 158764--158834 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
158754 TCAAGGTTTA
*
158764 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
* *
158800 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAAT
158835 CTTCTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGACAAAATT
Found at i:160343 original size:94 final size:95
Alignment explanation
Indices: 160180--160356 Score: 257
Period size: 94 Copynumber: 1.9 Consensus size: 95
160170 TGTAAATACC
* * * * * * *
160180 TTATCAAGTTAGCTGAATCTTATCCATTAAGCCGGGGCGTTTAACCAATTGCCTTAGAGGGATAG
1 TTATCAAGCTAGCTGAATATTATCCATAAAGCCGGAGCATTTAACCAATTGCCTTAGAGGGACAA
*
160245 CTCAAGC-TTATTGTATAGTATAATCACCT
66 CTCAAACTTTATTGTATAGTATAATCACCT
* *
160274 TTATCAAGCTAGCTGAATATTATCCATAAAGCTGGAGCATTTAACCAATTGCTTTAGAGGGACAA
1 TTATCAAGCTAGCTGAATATTATCCATAAAGCCGGAGCATTTAACCAATTGCCTTAGAGGGACAA
160339 CTCAAACTTTATTGTATA
66 CTCAAACTTTATTGTATA
160357 TAAATAATAT
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
94 62 0.86
95 10 0.14
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (95 bp):
TTATCAAGCTAGCTGAATATTATCCATAAAGCCGGAGCATTTAACCAATTGCCTTAGAGGGACAA
CTCAAACTTTATTGTATAGTATAATCACCT
Done.