Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009451.1 Hibiscus syriacus cultivar Beakdansim tig00113647_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: 213755
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:12421 original size:57 final size:56
Alignment explanation
Indices: 12326--12472 Score: 186
Period size: 57 Copynumber: 2.6 Consensus size: 56
12316 TAACAGAATT
* ** * *
12326 AAAACTAACACCTTTTTAAAAATATTTATGAAACTAACAACATTTTTAAAATATTTAC
1 AAAAATAACACC-TTTTAAAAATATTTACAAAAATAACAACATTTTAAAAATA-TTAC
* * *
12384 AAAAATAACACCTTTTAAAAGTATTTACAAAAATAACACCCTTTTAAAAATATTAC
1 AAAAATAACACCTTTTAAAAATATTTACAAAAATAACAACATTTTAAAAATATTAC
*
12440 TAAAATAACACCCTTTTAAAAATATTTACAAAA
1 AAAAATAACA-CCTTTTAAAAATATTTACAAAA
12473 TAGCACCCGG
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
56 13 0.17
57 54 0.69
58 11 0.14
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (56 bp):
AAAAATAACACCTTTTAAAAATATTTACAAAAATAACAACATTTTAAAAATATTAC
Found at i:12473 original size:28 final size:29
Alignment explanation
Indices: 12326--12480 Score: 190
Period size: 28 Copynumber: 5.4 Consensus size: 29
12316 TAACAGAATT
* * *
12326 AAAACTAACACCTTTTTAAAAATATTTAT
1 AAAAATAACACCCTTTTAAAAATATTTAC
* * * * *
12355 GAAACTAACAACATTTTTAAAATATTTAC
1 AAAAATAACACCCTTTTAAAAATATTTAC
*
12384 AAAAATAACA-CCTTTTAAAAGTATTTAC
1 AAAAATAACACCCTTTTAAAAATATTTAC
12412 AAAAATAACACCCTTTTAAAAATA-TTAC
1 AAAAATAACACCCTTTTAAAAATATTTAC
*
12440 TAAAATAACACCCTTTTAAAAATATTTAC
1 AAAAATAACACCCTTTTAAAAATATTTAC
*
12469 -AAAATAGCACCC
1 AAAAATAACACCC
12481 GGGTCGGTCG
Statistics
Matches: 111, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
28 63 0.57
29 48 0.43
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.32
Consensus pattern (29 bp):
AAAAATAACACCCTTTTAAAAATATTTAC
Found at i:20467 original size:63 final size:63
Alignment explanation
Indices: 20368--20549 Score: 229
Period size: 63 Copynumber: 2.9 Consensus size: 63
20358 CATCCCCTCC
* * * * *
20368 CCTCTTCTTTACATTCTGATTGCAAACATTGTCCCCTTCCTTCAAAAACTTTTCCTCTGTTCT
1 CCTCTTCTTTCCATTCTGTTTGCTAACATTTTCCCCTTCCTTCAAAAACTTTTCCTCTGTTAT
* * * *
20431 CCTCTTCTTTCCATTCTTTTTGCTTACATTTTCCCCTTCATTCAAAAACGTTTCCTCTGTTAT
1 CCTCTTCTTTCCATTCTGTTTGCTAACATTTTCCCCTTCCTTCAAAAACTTTTCCTCTGTTAT
* * ** * *
20494 CCTGTTCTTTCCATTCTGTTTGCTGATGTTTTCCCCTTCCATCAAAAGCTTTTCCT
1 CCTCTTCTTTCCATTCTGTTTGCTAACATTTTCCCCTTCCTTCAAAAACTTTTCCT
20550 TACTACTATC
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 101 1.00
ACGTcount: A:0.16, C:0.31, G:0.07, T:0.46
Consensus pattern (63 bp):
CCTCTTCTTTCCATTCTGTTTGCTAACATTTTCCCCTTCCTTCAAAAACTTTTCCTCTGTTAT
Found at i:24202 original size:30 final size:29
Alignment explanation
Indices: 24146--24210 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
24136 ACTAAAATTT
* *
24146 AAATTTTGAAAGTTTAGTGACCAAAGTAG
1 AAATTTGGAAAGTTTAGGGACCAAAGTAG
* *
24175 AAATTTGGAAATGTTTAGGGTCTAAAGTAG
1 AAATTTGGAAA-GTTTAGGGACCAAAGTAG
*
24205 TAATTT
1 AAATTT
24211 TCCTAAAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (29 bp):
AAATTTGGAAAGTTTAGGGACCAAAGTAG
Found at i:26778 original size:20 final size:19
Alignment explanation
Indices: 26749--26786 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
26739 TTGGACCTGA
*
26749 AAATAAAAAAATGAAAATT
1 AAATAAAAAAATAAAAATT
26768 AAATCAAAAAAATAAAAAT
1 AAAT-AAAAAAATAAAAAT
26787 AAAGTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (19 bp):
AAATAAAAAAATAAAAATT
Found at i:26784 original size:19 final size:19
Alignment explanation
Indices: 26749--26794 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
26739 TTGGACCTGA
*
26749 AAATAAAAAAATGAAAATT
1 AAATAAAAAAATGAAAAAT
26768 AAATCAAAAAAAT-AAAAAT
1 AAAT-AAAAAAATGAAAAAT
26787 AAAGTAAA
1 AAA-TAAA
26795 TAATAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.17
Consensus pattern (19 bp):
AAATAAAAAAATGAAAAAT
Found at i:26868 original size:27 final size:26
Alignment explanation
Indices: 26832--26899 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 26
26822 TATATATATT
*
26832 AAAAATTATATAATATATATTAT-TTTC
1 AAAAACTATATAATAT-TA-TATCTTTC
26859 AAAAACTATAT-ATATTATATGCTTTC
1 AAAAACTATATAATATTATAT-CTTTC
*
26885 -AAAACTGTATAATAT
1 AAAAACTATATAATAT
26900 GTTTTCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
24 3 0.08
25 11 0.31
26 12 0.33
27 10 0.28
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (26 bp):
AAAAACTATATAATATTATATCTTTC
Found at i:26872 original size:22 final size:23
Alignment explanation
Indices: 26844--27005 Score: 146
Period size: 22 Copynumber: 7.3 Consensus size: 23
26834 AAATTATATA
26844 ATATATAT-TATTTTCAAAAACT
1 ATATATATATATTTTCAAAAACT
26866 ATATATATTATATGCTTTC-AAAACT
1 ATATATA-TATAT--TTTCAAAAACT
* *
26891 GTATA-ATATGTTTTCAAAAAC-
1 ATATATATATATTTTCAAAAACT
* *
26912 A-ATA-CTATATTTTCAAAAGCT
1 ATATATATATATTTTCAAAAACT
*
26933 ATATACTATATGTTTT-AAAAACT
1 ATATA-TATATATTTTCAAAAACT
* *
26956 ATATA-ATATGTTTTCAAAAAAT
1 ATATATATATATTTTCAAAAACT
26978 ATAT-TATATATTCTT-AAAAACT
1 ATATATATATATT-TTCAAAAACT
27000 ATATAT
1 ATATAT
27006 TATTATAACA
Statistics
Matches: 115, Mismatches: 12, Indels: 25
0.76 0.08 0.16
Matches are distributed among these distances:
20 16 0.14
21 14 0.12
22 41 0.36
23 19 0.17
24 11 0.10
25 10 0.09
26 4 0.03
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
ATATATATATATTTTCAAAAACT
Found at i:26925 original size:67 final size:67
Alignment explanation
Indices: 26843--27012 Score: 204
Period size: 65 Copynumber: 2.5 Consensus size: 67
26833 AAAATTATAT
* *
26843 AATATA-TATTATTTTCAAAAACTATATATATTATATGCTTTCAAAACTGTATAATATGTTTTCA
1 AATATACTA-TATTTTCAAAAACTATATATATTATATGCTTTAAAAACTATATAATATGTTTTCA
26907 AAA
65 AAA
* * *
26910 ACA-ATACTATATTTTCAAAAGC--TATATACTATATGTTTTAAAAACTATATAATATGTTTTCA
1 A-ATATACTATATTTTCAAAAACTATATATATTATATGCTTTAAAAACTATATAATATGTTTTCA
26972 AAA
65 AAA
* *
26975 AATATATTATATATTCTTAAAAACTATATATTATTATA
1 AATATACTATAT-TT-TCAAAAACTATATA-TATTATA
27013 ACATAAATAT
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
64 1 0.01
65 48 0.56
66 2 0.02
67 22 0.26
68 3 0.03
69 4 0.05
70 6 0.07
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (67 bp):
AATATACTATATTTTCAAAAACTATATATATTATATGCTTTAAAAACTATATAATATGTTTTCAA
AA
Found at i:28462 original size:143 final size:143
Alignment explanation
Indices: 28184--28523 Score: 536
Period size: 143 Copynumber: 2.4 Consensus size: 143
28174 CCTTCATAGG
* * * *
28184 CTTCGCGGTTTAAGTTGGTCTTAAATCTTTGGATGACACCCCTTCATGGGAAAAGTAAATGAGAT
1 CTTCGTGGTTTATGTT-GTTTTAAATCTTTGGATGACACCCCTTCATGGGAAAGGTAAATGAGAT
28249 GACACCCCTTCGGGGTTTAAGTCTGTCTTGATTCTTTAGATGAGCCCCCTTCACGGGAAAGCTAG
65 GACACCCCTTCGGGGTTTAAGTCTGTCTTGATTCTTTAGATGAGCCCCCTTCACGGGAAAGCTAG
*
28314 GTAAGATGACTCTT
130 GTAAGATGACTCTC
28328 CTTCGTGGTTTATGTTGTTTTAAATCTTTGGATGACACCCCTTCATGGGAAAGGTAAATGAGATG
1 CTTCGTGGTTTATGTTGTTTTAAATCTTTGGATGACACCCCTTCATGGGAAAGGTAAATGAGATG
* * * *
28393 ATACCCCTTTGGGGTTTAAGTCTGTCTTGATTCTTTAGATGAGTCCCCTTCATGGGAAAGCTAGG
66 ACACCCCTTCGGGGTTTAAGTCTGTCTTGATTCTTTAGATGAGCCCCCTTCACGGGAAAGCTAGG
28458 TAAGATGACTCTC
131 TAAGATGACTCTC
* * * * * *
28471 CTTCGTGGTTTATGTTGTTATGATTCTTTGGATAACTCCCCTTCATAGGAAAG
1 CTTCGTGGTTTATGTTGTTTTAAATCTTTGGATGACACCCCTTCATGGGAAAG
28524 CCAGGTGAGA
Statistics
Matches: 181, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
143 167 0.92
144 14 0.08
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (143 bp):
CTTCGTGGTTTATGTTGTTTTAAATCTTTGGATGACACCCCTTCATGGGAAAGGTAAATGAGATG
ACACCCCTTCGGGGTTTAAGTCTGTCTTGATTCTTTAGATGAGCCCCCTTCACGGGAAAGCTAGG
TAAGATGACTCTC
Found at i:28481 original size:72 final size:71
Alignment explanation
Indices: 28184--28628 Score: 385
Period size: 72 Copynumber: 6.2 Consensus size: 71
28174 CCTTCATAGG
* * * * * **
28184 CTTCGCGGTTTAAGTTGGTCTTAAATCTTTGGATGACACCCCTTCATGGGAAAAG-TAAATGAGA
1 CTTCGTGGTTTAAGTT-GTCTTGATTCTTTAGATGACTCCCCTTCATGGG-AAAGCTAGGTGAGA
*
28248 TGACACCC
64 TGACTCCC
* * *
28256 CTTCGGGGTTTAAGTCTGTCTTGATTCTTTAGATGAGC-CCCCTTCACGGGAAAGCTAGGTAAGA
1 CTTCGTGGTTTAAGT-TGTCTTGATTCTTTAGATGA-CTCCCCTTCATGGGAAAGCTAGGTGAGA
**
28320 TGACTCTT
64 TGACTCCC
* * * * * * * **
28328 CTTCGTGGTTTATGTTGTTTTAAATCTTTGGATGACACCCCTTCATGGGAAAGGTAAATGAGATG
1 CTTCGTGGTTTAAGTTGTCTTGATTCTTTAGATGACTCCCCTTCATGGGAAAGCTAGGTGAGATG
28393 A-TACCC
66 ACT-CCC
* * * *
28399 CTTTGGGGTTTAAGTCTGTCTTGATTCTTTAGATGAGTCCCCTTCATGGGAAAGCTAGGTAAGAT
1 CTTCGTGGTTTAAGT-TGTCTTGATTCTTTAGATGACTCCCCTTCATGGGAAAGCTAGGTGAGAT
*
28464 GACTCTC
65 GACTCCC
* * * * *
28471 CTTCGTGGTTTATGTTGT-TATGATTCTTTGGATAACTCCCCTTCATAGGAAAGCCAGGTGAGAT
1 CTTCGTGGTTTAAGTTGTCT-TGATTCTTTAGATGACTCCCCTTCATGGGAAAGCTAGGTGAGAT
28535 GACTCCC
65 GACTCCC
* * ** * * * * *
28542 CTACATAATTTAAGTTAATCTCGATTCTTTAGATAACTCCCCTTCATGGGAAAGCCAGATGAGAT
1 CTTCGTGGTTTAAGTT-GTCTTGATTCTTTAGATGACTCCCCTTCATGGGAAAGCTAGGTGAGAT
*
28607 TACTCCC
65 GACTCCC
* **
28614 TTTCACGGTTTAAGT
1 CTTCGTGGTTTAAGT
28629 CAATCTTGGT
Statistics
Matches: 299, Mismatches: 64, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
70 3 0.01
71 115 0.38
72 177 0.59
73 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (71 bp):
CTTCGTGGTTTAAGTTGTCTTGATTCTTTAGATGACTCCCCTTCATGGGAAAGCTAGGTGAGATG
ACTCCC
Found at i:28554 original size:143 final size:143
Alignment explanation
Indices: 28205--28596 Score: 457
Period size: 143 Copynumber: 2.7 Consensus size: 143
28195 AAGTTGGTCT
* * * * * * **
28205 TAAATCTTTGGATGACACCCCTTCATGGGAAAAG-TAAATGAGATGACACCCCTTCGGGGTTTAA
1 TAAATCTTTGGATAACACCCCTTCATAGG-AAAGCCAAATGAGATGATACCCCTACAGAATTTAA
* * *
28269 GTCTGTCTTGATTCTTTAGATGAGCCCCCTTCACGGGAAAGCTAGGTAAGATGACTCTTCTTCGT
65 GTCTGTCTTGATTCTTTAGATGAGTCCCCTTCATGGGAAAGCTAGGTAAGATGACTCTCCTTCGT
*
28334 GGTTTATGTTGTTT
130 GGTTTATGTTGTTA
* * ** *** **
28348 TAAATCTTTGGATGACACCCCTTCATGGGAAAGGTAAATGAGATGATACCCCTTTGGGGTTTAAG
1 TAAATCTTTGGATAACACCCCTTCATAGGAAAGCCAAATGAGATGATACCCCTACAGAATTTAAG
28413 TCTGTCTTGATTCTTTAGATGAGTCCCCTTCATGGGAAAGCTAGGTAAGATGACTCTCCTTCGTG
66 TCTGTCTTGATTCTTTAGATGAGTCCCCTTCATGGGAAAGCTAGGTAAGATGACTCTCCTTCGTG
28478 GTTTATGTTGTTA
131 GTTTATGTTGTTA
* * * ** *
28491 TGATTCTTTGGATAACTCCCCTTCATAGGAAAGCCAGGTGAGATGACT-CCCCTACATAATTTAA
1 TAAATCTTTGGATAACACCCCTTCATAGGAAAGCCAAATGAGATGA-TACCCCTACAGAATTTAA
* * * *
28555 GT-TAATCTCGATTCTTTAGATAACTCCCCTTCATGGGAAAGC
65 GTCT-GTCTTGATTCTTTAGATGAGTCCCCTTCATGGGAAAGC
28597 CAGATGAGAT
Statistics
Matches: 221, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
142 5 0.02
143 215 0.97
144 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (143 bp):
TAAATCTTTGGATAACACCCCTTCATAGGAAAGCCAAATGAGATGATACCCCTACAGAATTTAAG
TCTGTCTTGATTCTTTAGATGAGTCCCCTTCATGGGAAAGCTAGGTAAGATGACTCTCCTTCGTG
GTTTATGTTGTTA
Found at i:34576 original size:20 final size:19
Alignment explanation
Indices: 34518--34582 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
34508 GATCTATCTC
*
34518 TTTTCCAAAGGAATGATCA
1 TTTTTCAAAGGAATGATCA
34537 TTTTTCATAACGG-ATGGATCA
1 TTTTTCA-AA-GGAAT-GATCA
*
34558 TTTTTCAAAGGGAATGATCC
1 TTTTTCAAA-GGAATGATCA
34578 TTTTT
1 TTTTT
34583 GAAAAAGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 6 0.15
20 17 0.44
21 16 0.41
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (19 bp):
TTTTTCAAAGGAATGATCA
Found at i:35653 original size:17 final size:16
Alignment explanation
Indices: 35612--35653 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
35602 AAATACCTTT
35612 TAAAATAATTTTAAGA
1 TAAAATAATTTTAAGA
35628 -AAAATAATTTTAAAAGA
1 TAAAATAATTTT--AAGA
35645 TAAAA-AATT
1 TAAAATAATT
35654 GATATACGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 11 0.48
17 8 0.35
18 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
TAAAATAATTTTAAGA
Found at i:35946 original size:9 final size:9
Alignment explanation
Indices: 35934--35960 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
35924 TAAATTTTAT
35934 AATTAAAAA
1 AATTAAAAA
35943 AATTAAAAA
1 AATTAAAAA
35952 AATTAAAAA
1 AATTAAAAA
35961 TGAAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AATTAAAAA
Found at i:37382 original size:3 final size:3
Alignment explanation
Indices: 37376--37441 Score: 123
Period size: 3 Copynumber: 21.7 Consensus size: 3
37366 GTAATAATAA
37376 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
37424 TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT -TAT TA
37442 ACTAGGACAA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 59 0.95
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:38065 original size:24 final size:23
Alignment explanation
Indices: 38038--38082 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
38028 ATGTATTTCA
38038 ATTCACATATCACATCCACATTCC
1 ATTCACATATCACAT-CACATTCC
* *
38062 ATTCACATTTCATATCACATT
1 ATTCACATATCACATCACATT
38083 TTATATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (23 bp):
ATTCACATATCACATCACATTCC
Found at i:45604 original size:20 final size:19
Alignment explanation
Indices: 45565--45616 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
45555 TTTCTTTGAT
45565 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
45584 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
*
45604 ATTTATAAAATAA
1 A-TTAAAAAATAA
45617 GATATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:45772 original size:23 final size:22
Alignment explanation
Indices: 45746--45789 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
45736 TAACTAAGAT
45746 TTTAATAAATAAAATACATATTA
1 TTTAATAAAT-AAATACATATTA
* * *
45769 TTTATTATATAAATATATATT
1 TTTAATAAATAAATACATATT
45790 TAAGGTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAATAAATAAATACATATTA
Found at i:47186 original size:3 final size:3
Alignment explanation
Indices: 47178--47226 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
47168 GGCCAGTTTG
* *
47178 TAA TAA TAA TAA TAT TAA TAA TAA TAA AAA TATA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TAA
47225 TA
1 TA
47227 TAAAAATCAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
3 34 0.85
4 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:48459 original size:113 final size:113
Alignment explanation
Indices: 47731--48466 Score: 1141
Period size: 113 Copynumber: 6.5 Consensus size: 113
47721 AAGTCGAACA
* * * * * *
47731 AGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGATCCA-TCAAGTGATGGATTTGAGCAAAA
1 AGTTCTTCTCATTATGAACTTTCTCTGGAACTGCTGATCCACT-GAGTGATGAATTTAAGCAAAA
* * * *
47795 AGTTGAACAAATTCTTTTCATTATGAATTTCTTCTTTCTTCTTCAGATG
65 AGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* * ** * * * *
47844 AGTTATTCTCATTATGAACTCTAACTGGCACTGCTGATCTACCGAGTAATGAATTTAAGCAAAAA
1 AGTTCTTCTCATTATGAACTTTCTCTGGAACTGCTGATCCACTGAGTGATGAATTTAAGCAAAAA
* *
47909 GTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTTCTTCTTCAGATG
66 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* *
47957 AGTTCTTCTCATTATGAACTTTCTCTGGAACTGCTGATCCACCGAGTGATGAATTTAAGTAAAAA
1 AGTTCTTCTCATTATGAACTTTCTCTGGAACTGCTGATCCACTGAGTGATGAATTTAAGCAAAAA
*
48022 GTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
66 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* * *
48070 AGTTCTTCTCATTATGAACTTTCCCTAGAACTGCTGATCCACTAAGTGATGAATTTAAGCAAAAA
1 AGTTCTTCTCATTATGAACTTTCTCTGGAACTGCTGATCCACTGAGTGATGAATTTAAGCAAAAA
48135 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
*
48183 AGTTCTTCTCATTATGAACTTTCTCTGGAACTGCTGATCCACCGAGTGATGAATTTAAGCAAAAA
1 AGTTCTTCTCATTATGAACTTTCTCTGGAACTGCTGATCCACTGAGTGATGAATTTAAGCAAAAA
48248 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* *
48296 AGTTATTCTCATTATGAACTTTCTCTGGAACTGCAGATCCACTGAGTGATGAATTTAAGCAAAAA
1 AGTTCTTCTCATTATGAACTTTCTCTGGAACTGCTGATCCACTGAGTGATGAATTTAAGCAAAAA
48361 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* * * * * *
48409 AGTTATTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATTGAATGATGGATTTAA
1 AGTTCTTCTCATTATGAACTTTCTCTGGAACTGCTGATCCACTGAGTGATGAATTTAA
48467 ATCTTTGCTA
Statistics
Matches: 575, Mismatches: 47, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
113 575 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTTCTCTGGAACTGCTGATCCACTGAGTGATGAATTTAAGCAAAAA
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
Found at i:49358 original size:114 final size:114
Alignment explanation
Indices: 49157--49495 Score: 597
Period size: 114 Copynumber: 3.0 Consensus size: 114
49147 ATGATCATGC
* * * * *
49157 AATTCATCTTTCAATTATAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
*
49222 GAACACTTCGAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
49271 AATTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
*
49336 GAACACTTCCAGAAGATTCTATTGGGTCTCCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
49385 AATTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
* *
49450 GAACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGA
66 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGA
49496 TAACGTGGCA
Statistics
Matches: 215, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 215 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (114 bp):
AATTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
Found at i:50173 original size:14 final size:14
Alignment explanation
Indices: 50154--50231 Score: 72
Period size: 15 Copynumber: 5.4 Consensus size: 14
50144 TCTTGACCCC
50154 CTTTTTTCTTTTCT
1 CTTTTTTCTTTTCT
50168 CTTTTTTTCTTTT-T
1 C-TTTTTTCTTTTCT
50182 CTTTTTTCTTCTTCTT
1 CTTTTTTCTT-TTC-T
*
50198 CTTCTCTT-TTTTCT
1 CTT-TTTTCTTTTCT
50212 -TCTTTTTCTTTTCTT
1 CT-TTTTTCTTTTC-T
50227 CTTTT
1 CTTTT
50232 CATTTGTTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 17
0.74 0.03 0.24
Matches are distributed among these distances:
13 13 0.25
14 12 0.23
15 18 0.34
16 7 0.13
17 3 0.06
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
CTTTTTTCTTTTCT
Found at i:50180 original size:6 final size:6
Alignment explanation
Indices: 50156--50223 Score: 57
Period size: 6 Copynumber: 10.7 Consensus size: 6
50146 TTGACCCCCT
* *
50156 TTTTTC TTTTCTC TTTTTTTC TTTTTC TTTTTTC TTCTTC TTCTTC TCTTTT-
1 TTTTTC TTTT-TC --TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC T-TTTTC
*
50208 TTCTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTT
50224 CTTCTTTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
5 3 0.06
6 32 0.62
7 11 0.21
8 2 0.04
9 4 0.08
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:50193 original size:3 final size:3
Alignment explanation
Indices: 50174--50229 Score: 52
Period size: 3 Copynumber: 20.7 Consensus size: 3
50164 TTCTCTTTTT
* *
50174 TTC TTT TTC TT- TT- TTC TTC TTC TTC TTC -TC TT- TT- TTC TTC TTT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
50217 TTC TT- TTC TTC TT
1 TTC TTC TTC TTC TT
50230 TTCATTTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 12 0.27
3 33 0.73
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (3 bp):
TTC
Found at i:50215 original size:37 final size:35
Alignment explanation
Indices: 50159--50229 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 35
50149 ACCCCCTTTT
50159 TTCTTTTCTCTTTTTTTCTTTTTCTTTT-TTCTTC
1 TTCTTTTCTCTTTTTTTCTTTTTCTTTTCTTCTTC
50193 TTCTTCTTCTCTTTTTTCTTCTTTTTCTTTTCTTCTT
1 TTCTT-TTCTC-TTTTT-TTCTTTTTCTTTTCTTCTT
50230 TTCATTTGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 5 0.15
35 5 0.15
36 5 0.15
37 13 0.39
38 5 0.15
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (35 bp):
TTCTTTTCTCTTTTTTTCTTTTTCTTTTCTTCTTC
Found at i:50242 original size:21 final size:21
Alignment explanation
Indices: 50157--50232 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
50147 TGACCCCCTT
* *
50157 TTTTCTTTTCTCTT-TTTTTC
1 TTTTCTTTTTTCTTCTTCTTC
50177 TTTTTCTTTTTTCTTCTTCTTC
1 -TTTTCTTTTTTCTTCTTCTTC
* *
50199 TTCTCTTTTTTCTTCTTTTTC
1 TTTTCTTTTTTCTTCTTCTTC
50220 TTTTCTTCTTTTC
1 TTTTCTT-TTTTC
50233 ATTTGTTCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
21 38 0.79
22 10 0.21
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCTTTTTTCTTCTTCTTC
Found at i:50242 original size:42 final size:42
Alignment explanation
Indices: 50160--50243 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
50150 CCCCCTTTTT
*
50160 TCTTTTCTCTTTTTTTCTTTTTCTTTTTTCTTCTTCTTCTTC
1 TCTTTTCTCTTTTTTTCTTTTTCTTTTTTCATCTTCTTCTTC
* *
50202 TCTTTTTTCTTCTTTTTC-TTTTCTTCTTTTCAT-TTGTTCTTC
1 TCTTTTCTCTT-TTTTTCTTTTTCTT-TTTTCATCTTCTTCTTC
50244 AAGCATAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 25 0.68
43 12 0.32
ACGTcount: A:0.01, C:0.23, G:0.01, T:0.75
Consensus pattern (42 bp):
TCTTTTCTCTTTTTTTCTTTTTCTTTTTTCATCTTCTTCTTC
Found at i:57510 original size:15 final size:15
Alignment explanation
Indices: 57487--57518 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
57477 TGCAATGAAT
57487 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
57502 AATGCATGTATGCAA
1 AATGAATGTATGCAA
57517 AA
1 AA
57519 GGTAATCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:61486 original size:20 final size:19
Alignment explanation
Indices: 61447--61498 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
61437 TTTCTTTGAT
61447 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
61466 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
*
61486 ATTTATAAAATAA
1 A-TTAAAAAATAA
61499 GATATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:61654 original size:23 final size:22
Alignment explanation
Indices: 61628--61671 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
61618 TAACTAAGAT
61628 TTTAATAAATAAAATACATATTA
1 TTTAATAAAT-AAATACATATTA
* * *
61651 TTTATTATATAAATATATATT
1 TTTAATAAATAAATACATATT
61672 TATGGTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAATAAATAAATACATATTA
Found at i:63057 original size:3 final size:3
Alignment explanation
Indices: 63049--63097 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
63039 GGTCTGTTTG
* *
63049 TAA TAA TAA TAA TAT TAA TAA TAA TAA AAA TATA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA TAA
63096 TA
1 TA
63098 TAAAAATCGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
3 34 0.85
4 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:63709 original size:2 final size:2
Alignment explanation
Indices: 63702--63727 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
63692 AATGCACTCA
63702 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
63728 CAGTAAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63895 original size:103 final size:103
Alignment explanation
Indices: 63616--63924 Score: 460
Period size: 101 Copynumber: 2.9 Consensus size: 103
63606 CATAGTGACG
* * *
63616 TCAGTAAACTCAACCAAACAGTCGAATCAAACAAATAAAACTTCTATATCATGTAAATGGTTGAA
1 TCAGTAAACTCAACCAAACTGTCGAATCAAGCAAATAAAACTTTTATATCATGTAAATGGTTGAA
*
63681 CCCAACCAATCAATGCACTCAATATATATATATATATATATATATA
66 CCCAACCAATCAATCCACTC-------A-ATATATATATATATATA
*
63727 TCAGTAAACTCAACCAAACTATCGAATCAAGCAAATAAAAC-TTT-TATCATGTAAATGGTTGAA
1 TCAGTAAACTCAACCAAACTGTCGAATCAAGCAAATAAAACTTTTATATCATGTAAATGGTTGAA
63790 CCCAACCAATCAATCCACTCAATATATATATATATATA
66 CCCAACCAATCAATCCACTCAATATATATATATATATA
* * *
63828 TCAGCAAACTCAACCAAACTGTCGACTCAAGTAAATAAAACTTTTATATCATGTAAATGGTTGAA
1 TCAGTAAACTCAACCAAACTGTCGAATCAAGCAAATAAAACTTTTATATCATGTAAATGGTTGAA
63893 CCCAACCAATCAATCCACTCAATATATATATA
66 CCCAACCAATCAATCCACTCAATATATATATA
63925 CACAACAATT
Statistics
Matches: 187, Mismatches: 9, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
101 54 0.29
102 4 0.02
103 51 0.27
109 38 0.20
110 2 0.01
111 38 0.20
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (103 bp):
TCAGTAAACTCAACCAAACTGTCGAATCAAGCAAATAAAACTTTTATATCATGTAAATGGTTGAA
CCCAACCAATCAATCCACTCAATATATATATATATATA
Found at i:65138 original size:19 final size:20
Alignment explanation
Indices: 65098--65135 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
65088 AAACTTCCAA
65098 AAGGGATTGACCCTTTTTTC
1 AAGGGATTGACCCTTTTTTC
*
65118 AAGGGATTGATCCTTTTT
1 AAGGGATTGACCCTTTTT
65136 CAAAAGAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (20 bp):
AAGGGATTGACCCTTTTTTC
Found at i:68807 original size:16 final size:16
Alignment explanation
Indices: 68786--68826 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
68776 TATATATTTA
* *
68786 TATGATGCGAAAGACT
1 TATGATGAGAAACACT
68802 TATGATGAGAAACACT
1 TATGATGAGAAACACT
*
68818 TACGATGAG
1 TATGATGAG
68827 TTAATCTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (16 bp):
TATGATGAGAAACACT
Found at i:77421 original size:61 final size:61
Alignment explanation
Indices: 77318--77437 Score: 186
Period size: 61 Copynumber: 2.0 Consensus size: 61
77308 CGGATTAACT
* *
77318 CTAGAGTGTATACCCAAGACACTTAGTGCAGGTGATGGGCACGACCTTATTTATCATAGTA
1 CTAGAGTGTATACCCAAGACACTTAGTGCAGGTGATGGGCACGAACTTATGTATCATAGTA
* * * *
77379 CTAGTGTGTATACCCAAGACACTTAGTGCAGGTGGTGTGCACGAACTTATGTGTCATAG
1 CTAGAGTGTATACCCAAGACACTTAGTGCAGGTGATGGGCACGAACTTATGTATCATAG
77438 CATTACGATG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (61 bp):
CTAGAGTGTATACCCAAGACACTTAGTGCAGGTGATGGGCACGAACTTATGTATCATAGTA
Found at i:88162 original size:35 final size:35
Alignment explanation
Indices: 88115--88188 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
88105 CTAAACCCTA
88115 AATTAAAGTATTTTAGAATTTAGGGTTTAAAATAT
1 AATTAAAGTATTTTAGAATTTAGGGTTTAAAATAT
* * * *
88150 AATTAAATTATTTTGGAATTTAGGGTTTAGAATGT
1 AATTAAAGTATTTTAGAATTTAGGGTTTAAAATAT
88185 AATT
1 AATT
88189 GAGGATGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (35 bp):
AATTAAAGTATTTTAGAATTTAGGGTTTAAAATAT
Found at i:89452 original size:26 final size:26
Alignment explanation
Indices: 89396--89453 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
89386 AATTAATGGT
** * * *
89396 GTGTTTTGGTGTGTTGCATTAACGAT
1 GTGTTTTAATGTGTTACATTAACAAG
*
89422 ATGTTTTAATGTGTTACATTAACAAG
1 GTGTTTTAATGTGTTACATTAACAAG
89448 GTGTTT
1 GTGTTT
89454 GGGTGTGCGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.47
Consensus pattern (26 bp):
GTGTTTTAATGTGTTACATTAACAAG
Found at i:103604 original size:79 final size:79
Alignment explanation
Indices: 103504--103984 Score: 683
Period size: 79 Copynumber: 6.1 Consensus size: 79
103494 ATATAGTATA
* * * * **
103504 CTTTTAGGCCTATAATGCACCCGTATGCATTTCAGCTATGGCATCCTTTCATGCCAGTAATATAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
103569 CCATATGCATTATT
66 CCATATGCATTATT
* * ** *
103583 CTTTTATGCCGATAATGCACCCATATACATTTTAGCTATGAAATCCTTTCATGCAAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
103648 CCATATGCATTATT
66 CCATATGCATTATT
* *
103662 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTACGGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
103727 CCATATGCATTATT
66 CCATATGCATTATT
* * * * * *
103741 ATTTTATGTCGATAATGCACCCATATGCAATTCAACTATGACATCATTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
*
103806 CCATATTCATTATT
66 CCATATGCATTATT
* * *
103820 ATTTTATGTCGATAATGCACCCATATGCAATTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
*
103885 CCATATACATTATT
66 CCATATGCATTATT
* * * * * * *
103899 CTTTTATACCGATAATACAGCCATATTCATTTTAACTATGGCATCCTTTCATGCCAATAATGTAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
103964 CCATATGCATTATT
66 CCATATGCATTATT
103978 CTTTTAT
1 CTTTTAT
103985 TCGTTTGTTC
Statistics
Matches: 360, Mismatches: 42, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 360 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.36
Consensus pattern (79 bp):
CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
CCATATGCATTATT
Found at i:103644 original size:45 final size:43
Alignment explanation
Indices: 103583--103974 Score: 199
Period size: 45 Copynumber: 9.7 Consensus size: 43
103573 ATGCATTATT
* * *
103583 CTTTTATGCCGATAATGCACCCATATACATTTTAGCTATGAAATC
1 CTTTCATGCCAATAATGCACCCATATGCATTTTAGCTATG--ATC
*
103628 CTTTCATGCAAATAATGCACCCATATGCA---T---TAT--T-
1 CTTTCATGCCAATAATGCACCCATATGCATTTTAGCTATGATC
* * *
103662 CTTTTATGCCAATAATGCACCCATATGCATTTCAGCTACGGCATC
1 CTTTCATGCCAATAATGCACCCATATGCATTTTAGCTA-TG-ATC
103707 CTTTCATGCCAATAATGCACCCATATGCA--TTA--T-T-AT-
1 CTTTCATGCCAATAATGCACCCATATGCATTTTAGCTATGATC
* * * * *
103743 -TTT-ATGTCGATAATGCACCCATATGCAATTCAACTATGACATC
1 CTTTCATGCCAATAATGCACCCATATGCATTTTAGCTATG--ATC
* *
103786 ATTTCATGCCAATAATGCACCCATATTCA--TTA--T-T-AT-
1 CTTTCATGCCAATAATGCACCCATATGCATTTTAGCTATGATC
* * * *
103822 -TTT-ATGTCGATAATGCACCCATATGCAATTCAGCTATGGCATC
1 CTTTCATGCCAATAATGCACCCATATGCATTTTAGCTAT-G-ATC
*
103865 CTTTCATGCCAATAATGCACCCATATACA---T---TAT--T-
1 CTTTCATGCCAATAATGCACCCATATGCATTTTAGCTATGATC
* * * * * * *
103899 CTTTTATACCGATAATACAGCCATATTCATTTTAACTATGGCATC
1 CTTTCATGCCAATAATGCACCCATATGCATTTTAGCTAT-G-ATC
*
103944 CTTTCATGCCAATAATGTACCCATATGCATT
1 CTTTCATGCCAATAATGCACCCATATGCATT
103975 ATTCTTTTAT
Statistics
Matches: 264, Mismatches: 39, Indels: 88
0.68 0.10 0.23
Matches are distributed among these distances:
34 93 0.35
35 8 0.03
36 4 0.02
37 5 0.02
38 2 0.01
39 8 0.03
40 6 0.02
41 2 0.01
42 5 0.02
43 4 0.02
44 8 0.03
45 119 0.45
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (43 bp):
CTTTCATGCCAATAATGCACCCATATGCATTTTAGCTATGATC
Found at i:104515 original size:20 final size:20
Alignment explanation
Indices: 104490--104539 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
104480 ATGTTGCTTG
104490 GTATCGATACCCTTACCATA
1 GTATCGATACCCTTACCATA
104510 GTATCGATACCCTTACCATA
1 GTATCGATACCCTTACCATA
104530 GTATCGATAC
1 GTATCGATAC
104540 TACCTCATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (20 bp):
GTATCGATACCCTTACCATA
Found at i:107386 original size:55 final size:55
Alignment explanation
Indices: 107327--107628 Score: 249
Period size: 54 Copynumber: 5.5 Consensus size: 55
107317 TAGAATTAAC
* * *
107327 GATTGAGCACCTCTGTGCTTGAATCGAAAGCTGACACCTCTGTGTATCCAAAAGT
1 GATTGAGCACCTCTGTGCTTCAATCGAAAGCTGACACCTCTGTGCATCTAAAAGT
*
107382 GATTGAGCATCTCTGTGCTTCAATCGAGAA-CTGACACCTCTGTGCAGT-TAAAAGAAAAAT
1 GATTGAGCACCTCTGTGCTTCAATCGA-AAGCTGACACCTCTGTGCA-TCTAAAAG-----T
* * * ** * * * *
107442 GACTGAGCACCTTTTTGCTTCAGCCGAAAGCTGACACCTCTGTGTAGCTAAGA-C
1 GATTGAGCACCTCTGTGCTTCAATCGAAAGCTGACACCTCTGTGCATCTAAAAGT
* * *
107496 GATTGAGCACCTCTGTGCTTCAATCG-AGGACTGACACCTCTGTGCAGCCAAAA-T
1 GATTGAGCACCTCTGTGCTTCAATCGAAAG-CTGACACCTCTGTGCATCTAAAAGT
* * * * * * *
107550 GACTGAGCACCTCTATGCTTCAGTCTAAAATCTGGCACCTCTGTGCAT-TAGAAG-
1 GATTGAGCACCTCTGTGCTTCAATC-GAAAGCTGACACCTCTGTGCATCTAAAAGT
* *
107604 GATTGAGTACCTCTGTGCTACAATC
1 GATTGAGCACCTCTGTGCTTCAATC
107629 TAAAATCAAG
Statistics
Matches: 195, Mismatches: 39, Indels: 27
0.75 0.15 0.10
Matches are distributed among these distances:
53 2 0.01
54 86 0.44
55 60 0.31
56 4 0.02
59 2 0.01
60 41 0.21
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (55 bp):
GATTGAGCACCTCTGTGCTTCAATCGAAAGCTGACACCTCTGTGCATCTAAAAGT
Found at i:107425 original size:27 final size:27
Alignment explanation
Indices: 107334--107426 Score: 75
Period size: 27 Copynumber: 3.4 Consensus size: 27
107324 AACGATTGAG
*
107334 CACCTCTGTGCTTGAATCGA-AAGCTGA
1 CACCTCTGTGCTTCAATCGAGAA-CTGA
** * *
107361 CACCTCTGTG-TATCCAAAAGTG-ATTGA
1 CACCTCTGTGCT-T-CAATCGAGAACTGA
*
107388 GCATCTCTGTGCTTCAATCGAGAACTGA
1 -CACCTCTGTGCTTCAATCGAGAACTGA
107416 CACCTCTGTGC
1 CACCTCTGTGC
107427 AGTTAAAAGA
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
26 1 0.02
27 29 0.59
28 18 0.37
29 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (27 bp):
CACCTCTGTGCTTCAATCGAGAACTGA
Found at i:107618 original size:108 final size:109
Alignment explanation
Indices: 107330--107628 Score: 280
Period size: 108 Copynumber: 2.7 Consensus size: 109
107320 AATTAACGAT
* * ** * * * * * * *
107330 TGAGCACCTCTGTGCTTGAATCGAAAGCTGACACCTCTGTGTATCCAAAAGTGATTGAGCATCTC
1 TGAGCACCTCTATGCTTCAGCCAAAAGCTGACACCTCTGTGCAGCTAAGA-CGATTGAGCACCTC
*
107395 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAGAAAAATGAC
65 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAG-----ACAAAAATGAC
* * * *
107445 TGAGCACCTTTTTGCTTCAGCCGAAAGCTGACACCTCTGTGTAGCTAAGACGATTGAGCACCTCT
1 TGAGCACCTCTATGCTTCAGCCAAAAGCTGACACCTCTGTGCAGCTAAGACGATTGAGCACCTCT
* *
107510 GTGCTTCAATCGAGGACTGACACCTCTGTGCAG-CCAAAATGAC
66 GTGCTTCAATCGAGAACTGACACCTCTGTGCAGACAAAAATGAC
* * * * * *
107553 TGAGCACCTCTATGCTTCAGTCTAAAATCTGGCACCTCTGTGCA--TTAGAAGGATTGAGTACCT
1 TGAGCACCTCTATGCTTCAG-CCAAAAGCTGACACCTCTGTGCAGCTAAG-ACGATTGAGCACCT
*
107616 CTGTGCTACAATC
64 CTGTGCTTCAATC
107629 TAAAATCAAG
Statistics
Matches: 158, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
107 3 0.02
108 50 0.32
109 18 0.11
114 45 0.28
115 42 0.27
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (109 bp):
TGAGCACCTCTATGCTTCAGCCAAAAGCTGACACCTCTGTGCAGCTAAGACGATTGAGCACCTCT
GTGCTTCAATCGAGAACTGACACCTCTGTGCAGACAAAAATGAC
Found at i:108629 original size:33 final size:32
Alignment explanation
Indices: 108500--108627 Score: 168
Period size: 32 Copynumber: 4.0 Consensus size: 32
108490 GTTGCCAAGG
*
108500 CACCCGTCACGGG-TTGCCGATGGTGACCGAGA
1 CACCCGTC-TGGGTTTGCCGATGGTGACCGAGA
*
108532 CACCCATCTGGGTTTGCCGATGGTGACCGAGA
1 CACCCGTCTGGGTTTGCCGATGGTGACCGAGA
*
108564 CACCCGTCTGGGTTTGCCGATGGTGACCGAGGC
1 CACCCGTCTGGGTTTGCCGATGGTGACCGA-GA
* * * *
108597 CACCCGCCTGGGATTACCGATGGTGATCGAG
1 CACCCGTCTGGGTTTGCCGATGGTGACCGAG
108628 GCTCACGCAC
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
31 3 0.03
32 56 0.65
33 27 0.31
ACGTcount: A:0.17, C:0.30, G:0.34, T:0.20
Consensus pattern (32 bp):
CACCCGTCTGGGTTTGCCGATGGTGACCGAGA
Found at i:117151 original size:96 final size:95
Alignment explanation
Indices: 116978--117249 Score: 350
Period size: 96 Copynumber: 2.9 Consensus size: 95
116968 ACATTGTGCA
* * * * * * ** * *
116978 AGGCTCCCGCACCCAGCGCTCGGTTCTGTGTGG-ATTTCCCGCACCAATGGACTGGGGTTGCCGA
1 AGGCCCCCGCACCCAACTCTCGGCTCTGTGCGGCA-CTCCCGCACCCGTGGCCTGGGGTTGCTGA
117042 GGCACCCGTCGGGGGTTACCGATGGTGACCG
65 GGCACCCGTCGGGGGTTACCGATGGTGACCG
* * *
117073 AGGCCCCCGTACCCAACTCTCGGCTCTGTGCGGCTCTCCCCGCACCCGTGGCCTGGGATTGCTGA
1 AGGCCCCCGCACCCAACTCTCGGCTCTGTGCGGCACT-CCCGCACCCGTGGCCTGGGGTTGCTGA
117138 GGCACCCGTCGGGGGTTACCGATGGTGACCG
65 GGCACCCGTCGGGGGTTACCGATGGTGACCG
* * *
117169 AGGTCCCCGCACCCAACTCTCGGCTCTGTGTGGCACTCCCGCACCCGTGGCCTGGGGTTG-TCAG
1 AGGCCCCCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCTGA-
*
117233 GGAACCCGTCGGGGGTT
65 GGCACCCGTCGGGGGTT
117250 GTCGATTCTG
Statistics
Matches: 154, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
94 2 0.01
95 66 0.43
96 86 0.56
ACGTcount: A:0.12, C:0.35, G:0.33, T:0.19
Consensus pattern (95 bp):
AGGCCCCCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCTGAG
GCACCCGTCGGGGGTTACCGATGGTGACCG
Found at i:117341 original size:33 final size:32
Alignment explanation
Indices: 117258--117362 Score: 147
Period size: 32 Copynumber: 3.2 Consensus size: 32
117248 TTGTCGATTC
* *
117258 TGACCGAGACACCTGTCTGGGCTTACCGATGG
1 TGACCGAGACACCTGTCTAGGATTACCGATGG
* * * *
117290 TGACTGAGACACCCGTCTAGGTTTGCCGATGG
1 TGACCGAGACACCTGTCTAGGATTACCGATGG
117322 TGACCGAGGACACCTGTCTAGGATTACCGATGG
1 TGACCGA-GACACCTGTCTAGGATTACCGATGG
117355 TGACCGAG
1 TGACCGAG
117363 TCTCCCGCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
32 34 0.54
33 29 0.46
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.22
Consensus pattern (32 bp):
TGACCGAGACACCTGTCTAGGATTACCGATGG
Found at i:120803 original size:3 final size:3
Alignment explanation
Indices: 120797--120890 Score: 102
Period size: 3 Copynumber: 32.0 Consensus size: 3
120787 TTTGGTTTTT
* * * *
120797 TTA TTA TTA TTA TTG CTA CTA TTA TTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
120845 TTA TTA ATA -AA ATA TTA TTA TTA TTA TTA ATA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
120891 CAGATACAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
2 3 0.04
3 74 0.96
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:122630 original size:39 final size:39
Alignment explanation
Indices: 122572--122646 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
122562 TATCTTATTT
* * * *
122572 ATAAAATATATATATATTAATTATATTTTTAAATTTGAA
1 ATAAAATATATATAAATTAAATATATCTTCAAATTTGAA
122611 ATAACAATAT-TATAAATTAAATATATCTTCAAATTT
1 ATAA-AATATATATAAATTAAATATATCTTCAAATTT
122647 TTAAATTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 26 0.84
40 5 0.16
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (39 bp):
ATAAAATATATATAAATTAAATATATCTTCAAATTTGAA
Found at i:123707 original size:15 final size:15
Alignment explanation
Indices: 123687--123724 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
123677 TTTTCCAAAC
123687 AAAGCATGGAACTAG
1 AAAGCATGGAACTAG
123702 AAAGCATGGAACTAG
1 AAAGCATGGAACTAG
123717 AAAGCATG
1 AAAGCATG
123725 AGGTTAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.47, C:0.13, G:0.26, T:0.13
Consensus pattern (15 bp):
AAAGCATGGAACTAG
Found at i:125265 original size:8 final size:7
Alignment explanation
Indices: 125241--125282 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
125231 TTTTCATACA
125241 TGCA-TT
1 TGCATTT
125247 TGCATTT
1 TGCATTT
125254 TGCATCTT
1 TGCAT-TT
125262 TGCATTT
1 TGCATTT
* *
125269 TTCATTG
1 TGCATTT
125276 TGCATTT
1 TGCATTT
125283 ATACATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:125265 original size:15 final size:14
Alignment explanation
Indices: 125241--125282 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
125231 TTTTCATACA
125241 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
125254 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
125269 TTCATTGTGCATTT
1 TGCATTTTGCATTT
125283 ATACATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:127009 original size:2 final size:2
Alignment explanation
Indices: 127002--127039 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
126992 ATCCTTTTAA
127002 AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
127040 CCTTTGTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130612 original size:75 final size:75
Alignment explanation
Indices: 130417--130666 Score: 293
Period size: 75 Copynumber: 3.3 Consensus size: 75
130407 AAGAAGTAAA
* * * * * * ** **
130417 TGTTAGGGTATGCTAAAAACCCTTTTCAATCAGAATCAGGAATGTTGATGTATCCTGAATGTTTA
1 TGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATGTTGATGTATTTTGAATGTTCG
*
130482 TATCAGCAAAA
66 TATCAGC-AAT
* * * *
130493 TGTTGGGTCATGCTGAAAGCCCCTTTTAATCAGAATGAAGAATGTTGATGTATTTTGAATGTTCG
1 TGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATGTTGATGTATTTTGAATGTTCG
*
130558 TATCAACAAT
66 TATCAGCAAT
* * * *
130568 TGATGGGGCATGCTGAAAGCCTATTTCAATCAGAATCAATAATGTTGATGTATTTTGAACGTTCG
1 TGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATGTTGATGTATTTTGAATGTTCG
130633 TATCAGCAAT
66 TATCAGCAAT
* *
130643 TGTTGGGGTATGCTGAAGGCCCAT
1 TGTTGGGGCATGCTGAAAGCCCAT
130667 ATCATCCTGT
Statistics
Matches: 146, Mismatches: 28, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
75 88 0.60
76 58 0.40
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (75 bp):
TGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATGTTGATGTATTTTGAATGTTCG
TATCAGCAAT
Found at i:132600 original size:113 final size:113
Alignment explanation
Indices: 132388--133406 Score: 1318
Period size: 113 Copynumber: 9.0 Consensus size: 113
132378 TAGCAAAGAT
* * * *
132388 TCAAATCCATCAC--AATGGATAAACATTTCCAGA-AAGAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTG
*
132450 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
132499 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
132564 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * *
132612 TCAAATCCATCACTTGATGGATCAGTTTTTCCAAAGAAAGTTCATAATAAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
132677 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
** * * * *
132725 TTGAATTCATCACTTGATGGATCAGCATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTG
*
132789 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
132838 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
132903 AGAAGGAAGAATAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * *
132951 TCAAATCCATCACTTGATGTATCAGCTTTTCCAGAGAAAGTTCATAATAAGAATAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
133016 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
** * * * * * * *
133064 TTGAATTCATCATTTGATGGATCAACATTGCCAG-GTAGAGTTAATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTG
* * *
133128 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * * * *
133177 TCGAATTCATCACTCGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
133242 AGAA-GAAAAAGAAGTTCATAATAATAAGAACTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
** * * * * * **
133289 TTGACTCTATCAC-AGAAGGAGATATATCAACATCTACATTTCCAGA-AGTGTTCATAATGAGAA
1 TCAAATCCATCACTTG-ATG-G----AT---CAGCT---TTTCCAGAGAAAGTTCATAATGAGAA
* *
133352 GAACTCATCTGAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTT
54 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
133407 GCCTTAATTC
Statistics
Matches: 804, Mismatches: 84, Indels: 29
0.88 0.09 0.03
Matches are distributed among these distances:
111 14 0.02
112 50 0.06
113 660 0.82
114 4 0.00
117 2 0.00
120 3 0.00
122 62 0.08
123 9 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
Found at i:133042 original size:339 final size:339
Alignment explanation
Indices: 132402--133406 Score: 1539
Period size: 339 Copynumber: 2.9 Consensus size: 339
132392 ATCCATCACA
* * **
132402 ATGGATAAACATTTCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
132467 TCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
66 TCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
132532 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCT
131 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCT
* * * *
132597 TGTTCAACCTTTTACTCAAATCCATCACTTGATGGATCAGTTTTTCCAAAGAAAGTTCATAATAA
196 TGTTCAACCTTTTGCTCAAATCCATCACTTGATGTATCAGCTTTTCCAGAGAAAGTTCATAATAA
132662 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
261 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
132727 GAATTCATCACTTG
326 GAATTCATCACTTG
*
132741 ATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
132806 TCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
66 TCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
*
132871 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAGCT
131 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCT
132936 TGTTCAACCTTTTGCTCAAATCCATCACTTGATGTATCAGCTTTTCCAGAGAAAGTTCATAATAA
196 TGTTCAACCTTTTGCTCAAATCCATCACTTGATGTATCAGCTTTTCCAGAGAAAGTTCATAATAA
*
133001 GAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
261 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
133066 GAATTCATCATTTG
326 GAATTCATCACTTG
* *
133080 ATGGATCAACATTGCCAGGTAGAGTTAATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
** * * * * * *
133145 TCATAATGAGAAGAATTTGTTTAACCTTTTGCTCGAATTCATCACTCGATGGATTAACTTTTCCA
66 TCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
* * * * *
133210 GAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAA-GAAAAAGAAGTTCATAATAATAAGAACT
131 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCT
** * * ** * * **
133274 TGTTCAACCTTTTGCTTGACTCTATCACAGAAGGAGATATATCAACATCTACATTTCCAGA-AGT
196 TGTTCAACCTTTTGCTCAAATCCATCAC-----TTGATGTAT---CAGCT---TTTCCAGAGAAA
* *
133338 GTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGTTCA
250 GTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
133402 ACCTT
315 ACCTT
133407 GCCTTAATTC
Statistics
Matches: 613, Mismatches: 42, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
338 47 0.08
339 481 0.78
343 6 0.01
346 4 0.01
347 36 0.06
348 31 0.05
349 8 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (339 bp):
ATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCA
GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCT
TGTTCAACCTTTTGCTCAAATCCATCACTTGATGTATCAGCTTTTCCAGAGAAAGTTCATAATAA
GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
GAATTCATCACTTG
Found at i:133756 original size:3 final size:3
Alignment explanation
Indices: 133750--133837 Score: 101
Period size: 3 Copynumber: 30.0 Consensus size: 3
133740 TTTGGTTTTT
* *
133750 TTA TTA TTA -TA TTTA TTA TTA TTA TTA CTA TTA TTA TTA TTA ATA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
133795 ATA -AA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
133838 CAGATACAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
2 5 0.07
3 68 0.91
4 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:135267 original size:2 final size:2
Alignment explanation
Indices: 135260--135301 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
135250 TCATATAAAC
135260 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
135302 TGTTTAAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:139561 original size:21 final size:19
Alignment explanation
Indices: 139537--139618 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 19
139527 TATTATGCTT
139537 GAAGAAAAAATGAAAAGAAGA
1 GAAGAAAAAA-GAAAA-AAGA
139558 GAAGAAAAAGAAGAAAAAAGA
1 GAAG-AAAA-AAGAAAAAAGA
139579 GAAGAAGAAGAAGAAAAAAGA
1 GAAGAA-AA-AAGAAAAAAGA
*
139600 -AAAAGAAAAAGAAAAAAGA
1 GAAGA-AAAAAGAAAAAAGA
139619 AAAAAGGGGG
Statistics
Matches: 56, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
19 11 0.20
20 7 0.12
21 27 0.48
22 9 0.16
23 2 0.04
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (19 bp):
GAAGAAAAAAGAAAAAAGA
Found at i:139563 original size:3 final size:3
Alignment explanation
Indices: 139551--139612 Score: 55
Period size: 3 Copynumber: 22.7 Consensus size: 3
139541 AAAAAATGAA
*
139551 AAG AAG -AG AAG AAA AAG AAG AA- AA- AAG -AG AAG AAG AAG AAG AA-
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
139594 AA- AAG AAA AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AA
139613 AAAAGAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 12 0.24
3 37 0.76
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:139568 original size:6 final size:6
Alignment explanation
Indices: 139549--139622 Score: 69
Period size: 6 Copynumber: 11.7 Consensus size: 6
139539 AGAAAAAATG
* * *
139549 AAAAGA AGAGAAGA AAAAGA AGAAA-A AAGAGA AGAAGA AGAAGAA AAAAGA
1 AAAAGA A-A-AAGA AAAAGA A-AAAGA AAAAGA AAAAGA AAAAG-A AAAAGA
139600 AAAAGA AAAAGAA AAAAGA AAAA
1 AAAAGA AAAAG-A AAAAGA AAAA
139623 AGGGGGTCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
5 2 0.03
6 35 0.60
7 16 0.28
8 5 0.09
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:140488 original size:114 final size:114
Alignment explanation
Indices: 140283--140621 Score: 597
Period size: 114 Copynumber: 3.0 Consensus size: 114
140273 TGCCACGTTA
* *
140283 TCATGGTAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
*
140348 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTTC
66 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGC
*
140397 TCATAGTAGAAATAAGGAGACCCAATAGAATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
140462 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGC
66 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGC
*
140511 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTCGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
* * * *
140576 TTCGGTAGGAACCCCAGAACCAATCATTAGAATTGAAAGATGAATT
66 TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
140622 GCATGATCAT
Statistics
Matches: 215, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 215 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (114 bp):
TCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
TTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATTTGC
Found at i:141510 original size:113 final size:113
Alignment explanation
Indices: 141329--142047 Score: 1159
Period size: 113 Copynumber: 6.4 Consensus size: 113
141319 CATCATTCAA
* *
141329 TGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
1 TGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
**
141394 CATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTATG
66 CATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGG
*
141442 TGGATCTGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
1 TGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
*
141507 CATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAAGTCATCACTCGG
66 CATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGG
*
141555 TGGATCAGCAGTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
1 TGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
*
141620 CATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCAG
66 CATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGG
*
141668 TGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTT
1 TGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
*
141733 CATAATGAGAAGAACTTGTTCAACTTTTTACTTAAATTCATCACTCGG
66 CATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGG
* *
141781 TGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAAAAGTT
1 TGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
*
141846 CATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATTACTCGG
66 CATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGG
* * ** * * * *
141894 TAGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAATAACTCATCTGAAGAAGAAAGAAGAAATT
1 TGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
* * * * * * *
141959 CATAATGAAAATAATTTGTTCAACTTTTTGCTCAAATCCATCACTTGA
66 CATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGG
* * *
142007 TGGATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACT
1 TGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACT
142048 TGTTCGACTT
Statistics
Matches: 563, Mismatches: 43, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
113 563 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
TGGATCAGCAGTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
CATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGG
Found at i:142560 original size:3 final size:3
Alignment explanation
Indices: 142552--142598 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
142542 CTGATTTTTA
* *
142552 TAT TAT TATT TAT TAT ATAT TTT TAT TAT TAT TAA TAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
142599 AACAAACTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 32 0.84
4 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:144200 original size:20 final size:19
Alignment explanation
Indices: 144175--144216 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
144165 TTATTTTATA
144175 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
144195 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
144214 AAT
1 AAT
144217 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:154031 original size:18 final size:16
Alignment explanation
Indices: 154001--154041 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
153991 ATTTTGGTCA
154001 TTTTATTGCAATTTTAT
1 TTTTATTGCAA-TTTAT
*
154018 TTTGTATTGTAATTTAT
1 TTT-TATTGCAATTTAT
154035 TTTTATT
1 TTTTATT
154042 TTTATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 4 0.18
17 11 0.50
18 7 0.32
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.68
Consensus pattern (16 bp):
TTTTATTGCAATTTAT
Found at i:155102 original size:30 final size:31
Alignment explanation
Indices: 155061--155128 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
155051 TCAAATTTTT
155061 TTTATTATATATACT-TATTATTTTCA-TAATA
1 TTTATTATATATA-TATATTATTTT-ATTAATA
155092 TTTA-TATATATATATATTATTTTATTAATA
1 TTTATTATATATATATATTATTTTATTAATA
155122 TTT-TTAT
1 TTTATTAT
155129 TTTATTTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
29 2 0.06
30 28 0.82
31 4 0.12
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTATTATATATATATATTATTTTATTAATA
Found at i:162688 original size:21 final size:23
Alignment explanation
Indices: 162664--162713 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
162654 GAATCAATCT
162664 CCCCCATG-AGG-GAACCGATTC
1 CCCCCATGAAGGAGAACCGATTC
**
162685 CCCCTTTGAAGGAGAACCGATTC
1 CCCCCATGAAGGAGAACCGATTC
162708 CCCCCA
1 CCCCCA
162714 CAGGGGAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 6 0.26
22 3 0.13
23 14 0.61
ACGTcount: A:0.24, C:0.40, G:0.20, T:0.16
Consensus pattern (23 bp):
CCCCCATGAAGGAGAACCGATTC
Found at i:163431 original size:12 final size:12
Alignment explanation
Indices: 163398--163423 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
163388 TAGTCGTCAA
163398 CCAAATCCTCCT
1 CCAAATCCTCCT
163410 CCAAATCCTCCT
1 CCAAATCCTCCT
163422 CC
1 CC
163424 TATTCCTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.54, G:0.00, T:0.23
Consensus pattern (12 bp):
CCAAATCCTCCT
Found at i:169862 original size:15 final size:16
Alignment explanation
Indices: 169837--169866 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
169827 TATACTTGAA
169837 GAAAGAAAGAAAAAAG
1 GAAAGAAAGAAAAAAG
169853 GAAA-AAAGAAAAAA
1 GAAAGAAAGAAAAAA
169867 ATTGAATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
GAAAGAAAGAAAAAAG
Found at i:174056 original size:54 final size:54
Alignment explanation
Indices: 173981--174135 Score: 177
Period size: 54 Copynumber: 2.9 Consensus size: 54
173971 GAAATATGTG
* * *
173981 CAGAAACCAC-AGAAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGGC
1 CAGAAGCCACAAG-AAAGGATGAATGTGTTATCAAATGTTTTACGAACATCTGGC
* * * * *
174035 CAGAAGCCATAAGAAAGGATGAATGTGTTATCAAAAGCTTTACGAAAATCTGGG
1 CAGAAGCCACAAGAAAGGATGAATGTGTTATCAAATGTTTTACGAACATCTGGC
* * * * *
174089 CAGAAGCCACGAGAAATGATGAATGTATTTTCACATGTTTTACGAAC
1 CAGAAGCCACAAGAAAGGATGAATGTGTTATCAAATGTTTTACGAAC
174136 CAGTGATTAT
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
54 81 0.98
55 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (54 bp):
CAGAAGCCACAAGAAAGGATGAATGTGTTATCAAATGTTTTACGAACATCTGGC
Found at i:174525 original size:22 final size:22
Alignment explanation
Indices: 174497--174556 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
174487 ATTATATCTA
174497 CACTCTTCAAAGATGATAAATT
1 CACTCTTCAAAGATGATAAATT
*
174519 CACTCTTCAAAGATGATAGATT
1 CACTCTTCAAAGATGATAAATT
* *
174541 CTCTTTTCAAAGATGA
1 CACTCTTCAAAGATGA
174557 AAGCTTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (22 bp):
CACTCTTCAAAGATGATAAATT
Found at i:175354 original size:74 final size:75
Alignment explanation
Indices: 175149--175847 Score: 968
Period size: 74 Copynumber: 9.4 Consensus size: 75
175139 ACTATTTCCC
* * * *
175149 TCATCCGTAAGAACTACAGTGCAGGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTT
1 TCATCTGTAAGACCTACAGTGCATGATGTTTTC-AAAAAGCCTTCGGGAGCTTTTTGAT-ATTTT
175214 AAAGCCTCCGGG
64 AAAGCCTCCGGG
*
175226 TCATCTGTAAGACCTACAGTGCATGATG--TTCAAAAATCCTTCGGGAGCTTTTTGATATTTTAA
1 TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTAA
*
175289 AGCCTTCGGG
66 AGCCTCCGGG
* * *
175299 TCATCCGTAAGACCTACAGTGCAAGAAGTTTTCAAAAAGCCTTCGGGAG-TTTTTGATATTTTTA
1 TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATA-TTTTA
175363 AAGCCTCCGGG
65 AAGCCTCCGGG
* * *
175374 TCATCTGTAAGACCTGCAGTGCATGATG--TTCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTTA
1 TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAT-ATTTTA
175437 AAGCCTCCGGG
65 AAGCCTCCGGG
** * * * * *
175448 TCATCCATAAGCCCTAAAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAACTTTTTTAT-TTTTAA
1 TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTAA
*
175512 AGCCTCCAGG
66 AGCCTCCGGG
*
175522 TCATCTGTAAGACCTACAGTGCATGATG--TTCAAAAAGCCTTCGGGAGCTTTTTGATATTTCAA
1 TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTAA
175585 AGCCTCCGGG
66 AGCCTCCGGG
*
175595 TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAAGCCTTCGGAAGCTTTTTGAT-TTTTA
1 TCATCTGTAAGACCTACAGTGCATGATGTTTTC-AAAAAGCCTTCGGGAGCTTTTTGATATTTTA
*
175659 AAGCCTCTGGG
65 AAGCCTCCGGG
* * * *
175670 TCATCTGTAAGACCTACAATGCATGATGTTTTTAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTA
1 TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAT-ATTTTA
175735 AAGCCTCCGGG
65 AAGCCTCCGGG
** * *
175746 TCATCCATAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATA-TTTAA
1 TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTAA
* *
175810 ATCCTTCGGG
66 AGCCTCCGGG
*
175820 TCATCTGTAAGACCTACAGTGCAAGATG
1 TCATCTGTAAGACCTACAGTGCATGATG
175848 ATAAGACTTC
Statistics
Matches: 551, Mismatches: 58, Indels: 29
0.86 0.09 0.05
Matches are distributed among these distances:
72 26 0.05
73 100 0.18
74 177 0.32
75 108 0.20
76 115 0.21
77 25 0.05
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (75 bp):
TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTAA
AGCCTCCGGG
Found at i:176029 original size:3 final size:3
Alignment explanation
Indices: 176021--176091 Score: 81
Period size: 3 Copynumber: 23.7 Consensus size: 3
176011 TCATTTCATT
** ** *
176021 TTA TTA TTA TTA TTA TTA AAA TTA TTA AAA TTA TTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
176069 TTA -TA TATA TTA TTA TTA TTA TT
1 TTA TTA T-TA TTA TTA TTA TTA TT
176092 TAATAAATAA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
2 2 0.04
3 51 0.91
4 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:176061 original size:27 final size:27
Alignment explanation
Indices: 176023--176091 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
176013 ATTTCATTTT
176023 ATTATTATTATTATTAAAATTAT-TAAA
1 ATTATTATTATTATTAAAATTATAT-AA
* *
176050 ATTATTATTATTATTAATATTATATAT
1 ATTATTATTATTATTAAAATTATATAA
176077 ATTATTATTATTATT
1 ATTATTATTATTATT
176092 TAATAAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 38 0.97
28 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
ATTATTATTATTATTAAAATTATATAA
Found at i:176104 original size:21 final size:24
Alignment explanation
Indices: 176029--176104 Score: 61
Period size: 27 Copynumber: 3.2 Consensus size: 24
176019 TTTTATTATT
*
176029 ATTATTATTAAAATTAT-TAAAATTA
1 ATTATTATTAATATTATAT-AAA-TA
* *
176054 TTATTATTATTAATATTATATATATT
1 --ATTATTATTAATATTATATAAATA
176080 ATTATTATT-AT-TTA-ATAAATA
1 ATTATTATTAATATTATATAAATA
176101 ATTA
1 ATTA
176105 CAAGGCCTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 9 0.21
22 3 0.07
23 2 0.05
24 9 0.21
26 1 0.02
27 18 0.42
28 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTATTATTAATATTATATAAATA
Found at i:187901 original size:75 final size:75
Alignment explanation
Indices: 187728--188021 Score: 365
Period size: 75 Copynumber: 3.9 Consensus size: 75
187718 AGGAATACTT
* * ** * * *
187728 TCTCAAGCGAGATGATA-TTTGTTTTAAGAAAAACAATCTTGAGTGAAATGAAATTTCTTGTTTC
1 TCTCAAGCGAAACGA-AGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTT-ATGTTTC
* *
187792 GAGTAAAAACTA
64 GAGTGAAAACTG
** * * * *
187804 TCTCAAGCGAAATAAAGATTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTTGTTTGGA
1 TCTCAAGCGAAACGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATGTTTCGA
187869 GTGAAAACTG
66 GTGAAAACTG
* * *
187879 TCTCAAGCAAAACGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATATTTCAA
1 TCTCAAGCGAAACGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATGTTTCGA
187944 GTGAAAACTG
66 GTGAAAACTG
* * * *
187954 TCTTAGGCGAAACGAAGTTTGTTTTAAGAAAAACAACCTCAAGCGAGATAAAATTTATGTTTCGA
1 TCTCAAGCGAAACGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATGTTTCGA
188019 GTG
66 GTG
188022 GAGTTATCTC
Statistics
Matches: 190, Mismatches: 27, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
75 144 0.76
76 46 0.24
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (75 bp):
TCTCAAGCGAAACGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATGTTTCGA
GTGAAAACTG
Found at i:188033 original size:38 final size:38
Alignment explanation
Indices: 187991--188081 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 38
187981 GAAAAACAAC
* * *
187991 CTCAAGCGAGATAAAA-TTTATGTTTCGAGTGGAGTTAT
1 CTCAAGCGAGATAAAAGTTT-TGCTTCGAGTGAAATTAT
**
188029 CTCAAATGAGATAAAAGTTTTGCTTCGAGTGAAATTAT
1 CTCAAGCGAGATAAAAGTTTTGCTTCGAGTGAAATTAT
188067 CTCAAGCGAGATAAA
1 CTCAAGCGAGATAAA
188082 TATTGTTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 42 0.93
39 3 0.07
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (38 bp):
CTCAAGCGAGATAAAAGTTTTGCTTCGAGTGAAATTAT
Found at i:188190 original size:34 final size:34
Alignment explanation
Indices: 188065--188190 Score: 98
Period size: 34 Copynumber: 3.6 Consensus size: 34
188055 GAGTGAAATT
* *
188065 ATCTCAAGCGAGATAAATATTGTTTT-AAGAAAAAAA
1 ATCTCAAGTGAGAT-AA-ATTGTTTTGAA-AAAAACA
* *
188101 ATCTCAAGTGAGATAAA-T-TTTTGCATTAAATGAGACT
1 ATCTCAAGTGAGATAAATTGTTTTG-A--AAA--AAACA
*
188138 ATCTCAAGCT-AGACAAATTGTTTTGAAAAAAACA
1 ATCTCAAG-TGAGATAAATTGTTTTGAAAAAAACA
188172 ATCTCAAGTGAGATAAATT
1 ATCTCAAGTGAGATAAATT
188191 TTGTAACACC
Statistics
Matches: 72, Mismatches: 8, Indels: 22
0.71 0.08 0.22
Matches are distributed among these distances:
32 4 0.06
33 2 0.03
34 21 0.29
35 4 0.06
36 17 0.24
37 16 0.22
38 3 0.04
39 5 0.07
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.30
Consensus pattern (34 bp):
ATCTCAAGTGAGATAAATTGTTTTGAAAAAAACA
Found at i:189047 original size:89 final size:89
Alignment explanation
Indices: 188920--189375 Score: 628
Period size: 89 Copynumber: 5.1 Consensus size: 89
188910 AATTTCTTAT
* *
188920 CAATATACATACCATTTAATCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAAT
1 CAATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAAT
* *
188985 CCCTAAGCTCGTAAGCGTATTTTAT
65 CCCTAAGCTCGTAAGCTTATTTTAC
*
189010 CAATATACTTACCATTATTCCATAAGCTCGTGAGCTTATTTTACCAATATACTTACCATTAAATC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAATC
* *
189075 CCTAAGCTTGTAAGCTTATTTTAT
66 CCTAAGCTCGTAAGCTTATTTTAC
* *
189099 TAATATACTTACCATTATTCCATAAGCTCGTGAGCTTATTTTACCAATATACTTACCATTAAATC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAATC
* * *
189164 CCTAAGTTGGTAATCTTATTTTAC
66 CCTAAGCTCGTAAGCTTATTTTAC
* * * * *
189188 CCATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTAACCAATATACTTACTA-TAATTT
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAATC
*
189252 CATAAGCTCGTAAGCTTATTTTAC
66 CCTAAGCTCGTAAGCTTATTTTAC
* * * ** * * * * *
189276 CAACATACTTACTATAATTTTATAAGCTCATAAGCTTATTTTACCAACATACTTACTA-TAATTT
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAATC
*
189340 CATAAGCTCGTAAGCTTATTTTAC
66 CCTAAGCTCGTAAGCTTATTTTAC
189364 CAATATACTTAC
1 CAATATACTTAC
189376 TATAATTTGC
Statistics
Matches: 335, Mismatches: 31, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
88 114 0.34
89 208 0.62
90 13 0.04
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (89 bp):
CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAATC
CCTAAGCTCGTAAGCTTATTTTAC
Found at i:189051 original size:44 final size:44
Alignment explanation
Indices: 188920--189375 Score: 579
Period size: 44 Copynumber: 10.3 Consensus size: 44
188910 AATTTCTTAT
* *
188920 CAATATACATACCATTTAATCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTAC
* * * *
188965 CAATATACTTACCATTAAATCCCTAAGCTCGTAAGCGTATTTTAT
1 CAATATACTTACCATT-ATTCCATAAGCTCGTAAGCTTATTTTAC
*
189010 CAATATACTTACCATTATTCCATAAGCTCGTGAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * * *
189054 CAATATACTTACCATTAAATCCCTAAGCTTGTAAGCTTATTTTAT
1 CAATATACTTACCATT-ATTCCATAAGCTCGTAAGCTTATTTTAC
* *
189099 TAATATACTTACCATTATTCCATAAGCTCGTGAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * * * *
189143 CAATATACTTACCATTAAATCCCTAAGTTGGTAATCTTATTTTAC
1 CAATATACTTACCATT-ATTCCATAAGCTCGTAAGCTTATTTTAC
* *
189188 CCATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTAAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * *
189232 CAATATACTTACTATAATTTCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * * ** *
189276 CAACATACTTACTATAATTTTATAAGCTCATAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * * *
189320 CAACATACTTACTATAATTTCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
189364 CAATATACTTAC
1 CAATATACTTAC
189376 TATAATTTGC
Statistics
Matches: 363, Mismatches: 45, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
44 234 0.64
45 129 0.36
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (44 bp):
CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:189610 original size:60 final size:59
Alignment explanation
Indices: 189534--189687 Score: 168
Period size: 57 Copynumber: 2.6 Consensus size: 59
189524 TTTCCTGCTC
* * *
189534 ATTTTAGCACACGAAGTGCCCTATTTGAGAATCCATACCAGTAATACGATTCCTTTACCA
1 ATTTTACCACATGAAGTGCCCTATTTGAGAATCCATA-CAGTAATACGATCCCTTTACCA
* * * * *
189594 ATTTTACCACCTGAAGTGCCCTATTCGAGAATCC--ACATTAGTATGATCCCTTTACCA
1 ATTTTACCACATGAAGTGCCCTATTTGAGAATCCATACAGTAATACGATCCCTTTACCA
* * * * *
189651 TTTTTAGCACATGAAGTGCCATATATGAAAATCCATA
1 ATTTTACCACATGAAGTGCCCTATTTGAGAATCCATA
189688 TTCTAGTATG
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
57 45 0.58
58 1 0.01
59 1 0.01
60 30 0.39
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (59 bp):
ATTTTACCACATGAAGTGCCCTATTTGAGAATCCATACAGTAATACGATCCCTTTACCA
Found at i:189669 original size:57 final size:59
Alignment explanation
Indices: 189534--189670 Score: 170
Period size: 57 Copynumber: 2.3 Consensus size: 59
189524 TTTCCTGCTC
* * *
189534 ATTTTAGCACACGAAGTGCCCTATTTGAGAATCCATACCAGTAATACGATTCCTTTACCA
1 ATTTTAGCACATGAAGTGCCCTATTCGAGAATCCA-ACCAGTAATACGATCCCTTTACCA
* * * * *
189594 ATTTTACCACCTGAAGTGCCCTATTCGAGAATCC-A-CATTAGTATGATCCCTTTACCA
1 ATTTTAGCACATGAAGTGCCCTATTCGAGAATCCAACCAGTAATACGATCCCTTTACCA
*
189651 TTTTTAGCACATGAAGTGCC
1 ATTTTAGCACATGAAGTGCC
189671 ATATATGAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
57 35 0.53
58 1 0.02
60 30 0.45
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (59 bp):
ATTTTAGCACATGAAGTGCCCTATTCGAGAATCCAACCAGTAATACGATCCCTTTACCA
Found at i:189915 original size:177 final size:177
Alignment explanation
Indices: 189732--190075 Score: 521
Period size: 177 Copynumber: 1.9 Consensus size: 177
189722 TAGTGCTTTT
* * *
189732 TCTGGAAATCCATACACTCAGTATGATTCCCTTACCATTTTAGCACA-TATAATGC-CCTATCTG
1 TCTGGAAATCCATACACTCAATATGATTCCCTTACCATTTTAGCACACT-CAATGCTCC-ATATG
* * * *
189795 GAAATCCATATATTCAATATGATTTTCTTATCATTTTAGCACATTCAGTGCTCCATATGGAAATT
64 GAAATCCATACACTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATT
* *
189860 CATACATTTAGTATGTTTTCCTTATCATTTTAGCACATAAAATGCCCTA
129 CATACATTCAGTATGATTTCCTTATCATTTTAGCACATAAAATGCCCTA
* * * * *
189909 TCTGGAAATCCATATATTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGA
1 TCTGGAAATCCATACACTCAATATGATTCCCTTACCATTTTAGCACACTCAATGCTCCATATGGA
*
189974 AATCCATACACTCAGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATTCA
66 AATCCATACACTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATTCA
190039 TACATTCAGTATGATTTCCTTATCATTTTAGCACATA
131 TACATTCAGTATGATTTCCTTATCATTTTAGCACATA
190076 TAGTGCCATT
Statistics
Matches: 150, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
177 147 0.98
178 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (177 bp):
TCTGGAAATCCATACACTCAATATGATTCCCTTACCATTTTAGCACACTCAATGCTCCATATGGA
AATCCATACACTCAATATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATTCA
TACATTCAGTATGATTTCCTTATCATTTTAGCACATAAAATGCCCTA
Found at i:190073 original size:118 final size:118
Alignment explanation
Indices: 189652--190073 Score: 528
Period size: 118 Copynumber: 3.6 Consensus size: 118
189642 CCTTTACCAT
* * * * * * * *
189652 TTTTAGCACATGAAGTGCCATATATGAAAATCC--ATATTCTAGTATGATTTCCTTATCCTTGTA
1 TTTTAGCACATAAAATGCCCTATCTGGAAATCCATATATTC-AATATGATTTCCTTATCATTTTA
* * *** * * *
189715 GCACCCTTAGTGCTTTTTCTGGAAATCCATACACTCAGTATGATTCCCTTACCA
65 GCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATCA
* *
189769 TTTTAGCACATATAATGCCCTATCTGGAAATCCATATATTCAATATGATTTTCTTATCATTTTAG
1 TTTTAGCACATAAAATGCCCTATCTGGAAATCCATATATTCAATATGATTTCCTTATCATTTTAG
* * * * *
189834 CACATTCAGTGCTCCATATGGAAATTCATACATTTAGTATGTTTTCCTTATCA
66 CACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATCA
189887 TTTTAGCACATAAAATGCCCTATCTGGAAATCCATATATTCAATATGATTTCCTTATCATTTTAG
1 TTTTAGCACATAAAATGCCCTATCTGGAAATCCATATATTCAATATGATTTCCTTATCATTTTAG
189952 CACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATCA
66 CACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATCA
* * * * * *
190005 TTTTAGCACACT-CAGTGCTCC-ATATGGAAATTCATACATTCAGTATGATTTCCTTATCATTTT
1 TTTTAGCACA-TAAAATGC-CCTATCTGGAAATCCATATATTCAATATGATTTCCTTATCATTTT
190068 AGCACA
64 AGCACA
190074 TATAGTGCCA
Statistics
Matches: 265, Mismatches: 36, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
117 27 0.10
118 229 0.86
119 9 0.03
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (118 bp):
TTTTAGCACATAAAATGCCCTATCTGGAAATCCATATATTCAATATGATTTCCTTATCATTTTAG
CACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATCA
Found at i:190102 original size:59 final size:57
Alignment explanation
Indices: 189652--190082 Score: 434
Period size: 59 Copynumber: 7.3 Consensus size: 57
189642 CCTTTACCAT
* * * *
189652 TTTTAGCACATGAAGTGCCATATATGAAAATCCAT--ATTCTAGTATGATTTCCTTATCC
1 TTTTAGCACAT-TAGTGCC-CATATGGAAATCCATACATTC-AGTATGATTTCCTTATCA
* * *** * * * *
189710 TTGTAGCACCCTTAGTGCTTTTTCTGGAAATCCATACACTCAGTATGATTCCCTTACCA
1 TTTTAGCA-CATTAGTGC-CCATATGGAAATCCATACATTCAGTATGATTTCCTTATCA
* * * * *
189769 TTTTAGCACATATAATGCCCTATCTGGAAATCCATATATTCAATATGATTTTCTTATCA
1 TTTTAGCACAT-TAGTGCCC-ATATGGAAATCCATACATTCAGTATGATTTCCTTATCA
* * *
189828 TTTTAGCACATTCAGTGCTCCATATGGAAATTCATACATTTAGTATGTTTTCCTTATCA
1 TTTTAGCACATT-AGTGC-CCATATGGAAATCCATACATTCAGTATGATTTCCTTATCA
* * * * *
189887 TTTTAGCACATAAAATGCCCTATCTGGAAATCCATATATTCAATATGATTTCCTTATCA
1 TTTTAGCACAT-TAGTGCCC-ATATGGAAATCCATACATTCAGTATGATTTCCTTATCA
* *
189946 TTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTTATCA
1 TTTTAGCACA-TTAGTGC-CCATATGGAAATCCATACATTCAGTATGATTTCCTTATCA
* *
190005 TTTTAGCACACTCAGTGCTCCATATGGAAATTCATACATTCAGTATGATTTCCTTATCA
1 TTTTAGCACA-TTAGTGC-CCATATGGAAATCCATACATTCAGTATGATTTCCTTATCA
190064 TTTTAGCACATATAGTGCC
1 TTTTAGCACAT-TAGTGCC
190083 ATTTGGTAAT
Statistics
Matches: 312, Mismatches: 48, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
58 31 0.10
59 273 0.88
60 8 0.03
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (57 bp):
TTTTAGCACATTAGTGCCCATATGGAAATCCATACATTCAGTATGATTTCCTTATCA
Found at i:192718 original size:28 final size:28
Alignment explanation
Indices: 192649--192718 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
192639 CACTATTTCT
* *
192649 CGAAGGACCACATATAACACATATGTCC
1 CGAAGGACCACGTAGAACACATATGTCC
192677 CGAAGGACCACGTAGAACACATATGTCC
1 CGAAGGACCACGTAGAACACATATGTCC
*
192705 CGAAGGACCTCGTA
1 CGAAGGACCACGTA
192719 AAACCCTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.36, C:0.29, G:0.20, T:0.16
Consensus pattern (28 bp):
CGAAGGACCACGTAGAACACATATGTCC
Found at i:193059 original size:23 final size:21
Alignment explanation
Indices: 193019--193061 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
193009 TAAAATAGAA
*
193019 ATTTTGAAATTTTGAAGTCTG
1 ATTTTGAAATTTTAAAGTCTG
193040 ATTTTGAAATATTTAAAAGTCT
1 ATTTTGAAAT-TTT-AAAGTCT
193062 AGTGATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 3 0.16
23 6 0.32
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (21 bp):
ATTTTGAAATTTTAAAGTCTG
Found at i:194706 original size:30 final size:29
Alignment explanation
Indices: 194670--194752 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
194660 CAGTTTACCT
* *
194670 AGGTTCTTCGAGACCTATGGATAGTTTTCG
1 AGGTTCTT-GAGACCTCTGGATAGTTGTCG
*
194700 AGGTTCTTTATGACCTCTGGATAGTTGTCG
1 AGGTTCTTGA-GACCTCTGGATAGTTGTCG
* *
194730 -GGGTCTTTGTGACCTCTGGATAG
1 AGGTTC-TTGAGACCTCTGGATAG
194753 GTCCTTCGAG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 18 0.40
30 27 0.60
ACGTcount: A:0.17, C:0.17, G:0.29, T:0.37
Consensus pattern (29 bp):
AGGTTCTTGAGACCTCTGGATAGTTGTCG
Found at i:194745 original size:29 final size:30
Alignment explanation
Indices: 194681--194752 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
194671 GGTTCTTCGA
* * *
194681 GACCTATGGATAGTTTTCGAGGTTCTTTAT
1 GACCTCTGGATAGTTGTCGAGGGTCTTTAT
*
194711 GACCTCTGGATAGTTGTCG-GGGTCTTTGT
1 GACCTCTGGATAGTTGTCGAGGGTCTTTAT
194740 GACCTCTGGATAG
1 GACCTCTGGATAG
194753 GTCCTTCGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 21 0.55
30 17 0.45
ACGTcount: A:0.17, C:0.17, G:0.29, T:0.38
Consensus pattern (30 bp):
GACCTCTGGATAGTTGTCGAGGGTCTTTAT
Found at i:194982 original size:23 final size:22
Alignment explanation
Indices: 194952--194998 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 22
194942 TGATTCTTGG
194952 TGATATGA-ACTGTATTATATGAT
1 TGATATGAGA-TGT-TTATATGAT
194975 TGATATGATGATGTTTATATGAT
1 TGATATGA-GATGTTTATATGAT
194998 T
1 T
194999 TGAAGGAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 18 0.82
24 3 0.14
25 1 0.05
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (22 bp):
TGATATGAGATGTTTATATGAT
Found at i:201513 original size:28 final size:28
Alignment explanation
Indices: 201473--201579 Score: 169
Period size: 28 Copynumber: 3.8 Consensus size: 28
201463 AATACCACTT
*
201473 TGTCCCGAAGGACCACATAGAACACATA
1 TGTCCCGAAGGACCACGTAGAACACATA
*
201501 TGTCCCAAAGGACCACGTAGAACACATA
1 TGTCCCGAAGGACCACGTAGAACACATA
* *
201529 TGTCCCGAAGGATCACGTAAAACACATA
1 TGTCCCGAAGGACCACGTAGAACACATA
*
201557 TATCCCGAAGGACCACGTAGAAC
1 TGTCCCGAAGGACCACGTAGAAC
201580 CCTCTACTCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.15
Consensus pattern (28 bp):
TGTCCCGAAGGACCACGTAGAACACATA
Found at i:213301 original size:13 final size:13
Alignment explanation
Indices: 213283--213308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
213273 TAAATAGTGC
213283 ACAAATATAAATT
1 ACAAATATAAATT
213296 ACAAATATAAATT
1 ACAAATATAAATT
213309 GAGTATTTTC
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
ACAAATATAAATT
Done.