Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 39 of 168
Found at i:10696374 original size:12 final size:12
Alignment explanation
Indices: 10696357--10696388 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10696347 ATGTAAAATC
10696357 TAAACTGACGTT
1 TAAACTGACGTT
*
10696369 TAAACTAACGTT
1 TAAACTGACGTT
10696381 TAAACTGA
1 TAAACTGA
10696389 TAAAAGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (12 bp):
TAAACTGACGTT
Found at i:10697583 original size:18 final size:17
Alignment explanation
Indices: 10697552--10697585 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10697542 ATAGCTATTT
10697552 TTTAAAAAACATAAAAA
1 TTTAAAAAACATAAAAA
*
10697569 TTTATAAAAATATAAAA
1 TTTA-AAAAACATAAAA
10697586 TGTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TTTAAAAAACATAAAAA
Found at i:10716557 original size:32 final size:32
Alignment explanation
Indices: 10716516--10716580 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
10716506 TACTCAGAAT
*
10716516 TTGCTTAAATTGTTCATAAAAGAGTGTTGAAC
1 TTGCATAAATTGTTCATAAAAGAGTGTTGAAC
10716548 TTGCATAAATTGTTCATAAAAGAGTGTTGAAC
1 TTGCATAAATTGTTCATAAAAGAGTGTTGAAC
10716580 T
1 T
10716581 ATCTACATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.37
Consensus pattern (32 bp):
TTGCATAAATTGTTCATAAAAGAGTGTTGAAC
Found at i:10717868 original size:37 final size:35
Alignment explanation
Indices: 10717813--10717881 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
10717803 AATTGCAGTC
* *
10717813 AAAATTTATTTTTCTAAAATTAAAATAATAAAAAAAT
1 AAAATTAATTTTTCTAAAAAT-AAA-AATAAAAAAAT
10717850 AAAATTAATGTTTT-TAAAAATAAAAATAAAAA
1 AAAATTAAT-TTTTCTAAAAATAAAAATAAAAA
10717882 TCTAACTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 8 0.28
36 3 0.10
37 14 0.48
38 4 0.14
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (35 bp):
AAAATTAATTTTTCTAAAAATAAAAATAAAAAAAT
Found at i:10724040 original size:15 final size:17
Alignment explanation
Indices: 10724004--10724043 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
10723994 TGTCTCAGCC
10724004 GTGTGAATCACATAGCT
1 GTGTGAATCACATAGCT
* *
10724021 GTGTGAATCACATGGTT
1 GTGTGAATCACATAGCT
10724038 GTGTGA
1 GTGTGA
10724044 CCCCTATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (17 bp):
GTGTGAATCACATAGCT
Found at i:10726176 original size:17 final size:17
Alignment explanation
Indices: 10726156--10726189 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10726146 TAATTTAAAT
10726156 AAATAATTTTCTCAACC
1 AAATAATTTTCTCAACC
10726173 AAATAATTTTCTCAACC
1 AAATAATTTTCTCAACC
10726190 CAATTCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATAATTTTCTCAACC
Found at i:10734405 original size:4 final size:4
Alignment explanation
Indices: 10734384--10734448 Score: 103
Period size: 4 Copynumber: 16.2 Consensus size: 4
10734374 AGGTATAAAC
* * *
10734384 AGAT ATAT ATAT ATAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
10734432 AGAT AGAT AGAT AGAT A
1 AGAT AGAT AGAT AGAT A
10734449 AAGAAACCGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (4 bp):
AGAT
Found at i:10743459 original size:30 final size:27
Alignment explanation
Indices: 10743416--10743477 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 27
10743406 TACATAAAAT
*
10743416 AATATTATAATATATAACTTTTATTAAA
1 AATATTATAATATATAACTATTA-TAAA
*
10743444 AATATTAATACATATATAACTATTATAAT
1 AATATT-ATA-ATATATAACTATTATAAA
10743473 AATAT
1 AATAT
10743478 AAATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 6 0.20
29 11 0.37
30 13 0.43
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (27 bp):
AATATTATAATATATAACTATTATAAA
Found at i:10743715 original size:16 final size:17
Alignment explanation
Indices: 10743696--10743728 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10743686 TATATAATGT
10743696 ACTACTATTAT-ATATA
1 ACTACTATTATGATATA
*
10743712 ACTATTATTATGATATA
1 ACTACTATTATGATATA
10743729 GATTATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (17 bp):
ACTACTATTATGATATA
Found at i:10743823 original size:15 final size:15
Alignment explanation
Indices: 10743805--10743833 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10743795 CTATTAACAT
10743805 ATTATATAATATAGC
1 ATTATATAATATAGC
10743820 ATTATATAATATAG
1 ATTATATAATATAG
10743834 TAAGAGGGCT
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:0.48, C:0.03, G:0.07, T:0.41
Consensus pattern (15 bp):
ATTATATAATATAGC
Found at i:10743911 original size:250 final size:230
Alignment explanation
Indices: 10743455--10744083 Score: 603
Period size: 250 Copynumber: 2.6 Consensus size: 230
10743445 ATATTAATAC
* * *
10743455 ATATATAACTATTATAATAATATAAATTATAATAAAAGATATGGTATTACATGACATTATAATGT
1 ATATATAACTATTATTATAATATAAATTATAATAAAAGATATAGTATTACATGATATTATAATGT
*** *
10743520 TTAATCGCCGACGCATATATATAAACTATTAATGTATGATATGATATGATATGATACAACATTAT
66 TTAATCATTGATGCATATATATAAACTATTAA--TAT-AT-T-ATAT-A-AT-AT--AACATTAT
* * * *
10743585 GTAACATAATAGGTGAGCTAACTTTTAAATGTAGCAAAAGTATAGAGACTTAGAGCATGTTTCAA
121 ATAACATAATAAGAGAGCTAACTTTTAAATGTAGCAAAAGTATAGAGACTTAGAGCATATTTCAA
10743650 TCAATATAATAATAAATAGTAATATATAATAATTAATATATAATGTACTACTATT
186 -C--TAT-A-AAT--A-A-TAATATATAATAATTAATAT-TAATGTACTACTATT
* * *
10743705 ATATATAACTATTATTATGATATAGATTATAATAAAAGATATAATATTACATGATATTATAATGT
1 ATATATAACTATTATTATAATATAAATTATAATAAAAGATATAGTATTACATGATATTATAATGT
* * * * * * *
10743770 TTAGTCATTTATGCATGTATATAAACTATTAACATATTATATAATATAGCATTATATAATATAGT
66 TTAATCATTGATGCATATATATAAACTATTAATATATTATATAATATAACATTATATAACATAAT
* *
10743835 AAGAGGGCTAACTTTTAAATGTATG-AAAAGTATAGAGATTTAGAGCATATTTCAACTAGTATAT
131 AAGAGAGCTAACTTTTAAATGTA-GCAAAAGTATAGAGACTTAGAGCATATTTCAAC--------
10743899 TAATAAATAATAATATATAATAATTAATATTAATGTACTACTATT
187 T-ATAAATAATAATATATAATAATTAATATTAATGTACTACTATT
* *
10743944 ATATATCACTATTATTATATTATATTTATAAATTATAATAAAAAAATATAGTATTACATGATATT
1 ATATATAACTATTA-T-TA-TA-A--TATAAATTATAAT-AAAAGATATAGTATTACATGATATT
* ** * * * * *
10744009 ATCATGTTTAATCATTGATAAATATACATAAACTATTAATATAGTATATACTATATGATATGATA
59 ATAATGTTTAATCATTGATGCATATATATAAACTATTAATATATTATATA--ATATAACATTATA
10744074 TAACATAATA
122 TAACATAATA
10744084 TAATATAATA
Statistics
Matches: 318, Mismatches: 44, Indels: 36
0.80 0.11 0.09
Matches are distributed among these distances:
239 29 0.09
240 83 0.26
241 4 0.01
242 4 0.01
243 3 0.01
244 4 0.01
245 19 0.06
246 67 0.21
247 2 0.01
248 19 0.06
250 84 0.26
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.38
Consensus pattern (230 bp):
ATATATAACTATTATTATAATATAAATTATAATAAAAGATATAGTATTACATGATATTATAATGT
TTAATCATTGATGCATATATATAAACTATTAATATATTATATAATATAACATTATATAACATAAT
AAGAGAGCTAACTTTTAAATGTAGCAAAAGTATAGAGACTTAGAGCATATTTCAACTATAAATAA
TAATATATAATAATTAATATTAATGTACTACTATT
Found at i:10743922 original size:20 final size:20
Alignment explanation
Indices: 10743894--10743932 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10743884 TTTCAACTAG
*
10743894 TATATTAATAAATAATAATA
1 TATAATAATAAATAATAATA
* *
10743914 TATAATAATTAATATTAAT
1 TATAATAATAAATAATAAT
10743933 GTACTACTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TATAATAATAAATAATAATA
Found at i:10745898 original size:32 final size:30
Alignment explanation
Indices: 10745861--10745972 Score: 104
Period size: 32 Copynumber: 3.5 Consensus size: 30
10745851 TTAATATTTA
10745861 ATTTAATTTAATACTTATCTTAATAGTATTAT
1 ATTTAATTTAATA-TTATCTT-ATAGTATTAT
*
10745893 ATTTAATATTAAAGTGATTATCTTA-A-TATTAA
1 ATTTAAT-TT-AA-T-ATTATCTTATAGTATTAT
*
10745925 ATTTAATCTAATATTTATCTTTATCAGTATTAT
1 ATTTAATTTAATA-TTATC-TTAT-AGTATTAT
10745958 A-TTAATTTAATATTA
1 ATTTAATTTAATATTA
10745973 AAGTAATTAA
Statistics
Matches: 67, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
28 1 0.01
29 6 0.09
30 5 0.07
31 4 0.06
32 30 0.45
33 9 0.13
34 3 0.04
35 8 0.12
36 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (30 bp):
ATTTAATTTAATATTATCTTATAGTATTAT
Found at i:10745912 original size:21 final size:19
Alignment explanation
Indices: 10745880--10745925 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
10745870 AATACTTATC
*
10745880 TTAATAGTATTATATTTAATA
1 TTAA-AGTATTAT-CTTAATA
10745901 TTAAAGTGATTATCTTAATA
1 TTAAAGT-ATTATCTTAATA
10745921 TTAAA
1 TTAAA
10745926 TTTAATCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (19 bp):
TTAAAGTATTATCTTAATA
Found at i:10748642 original size:17 final size:18
Alignment explanation
Indices: 10748615--10748648 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10748605 CCTTCGTCCT
10748615 CTAAGGGGAAACAAAAAG
1 CTAAGGGGAAACAAAAAG
*
10748633 CTAA-GGGAAAGAAAAA
1 CTAAGGGGAAACAAAAA
10748649 ATCGAATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.09, G:0.26, T:0.06
Consensus pattern (18 bp):
CTAAGGGGAAACAAAAAG
Found at i:10752950 original size:6 final size:6
Alignment explanation
Indices: 10752935--10752963 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
10752925 AATATGTATT
10752935 ATTT-A ATTTAA ATTTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
10752964 GATAATTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:10754504 original size:5 final size:5
Alignment explanation
Indices: 10754494--10754519 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10754484 TATTAAATAA
10754494 TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT T
10754520 TTAATATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TAATT
Found at i:10757682 original size:18 final size:18
Alignment explanation
Indices: 10757656--10757694 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
10757646 AATCAAAATT
10757656 TAAAAATCAAATTTAAAC
1 TAAAAATCAAATTTAAAC
*
10757674 TAAAGATCAAATTTAAAC
1 TAAAAATCAAATTTAAAC
10757692 TAA
1 TAA
10757695 TTACAGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (18 bp):
TAAAAATCAAATTTAAAC
Found at i:10757762 original size:29 final size:29
Alignment explanation
Indices: 10757729--10757792 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
10757719 AAATAAGTTG
*
10757729 ATCTTTATCCAACCAATTTCAAATATTTA
1 ATCTTTATCCAACCAATTTCAAATATTCA
*
10757758 ATCTTTATCCAGCCAATTTCAAATATTCA
1 ATCTTTATCCAACCAATTTCAAATATTCA
10757787 ATCTTT
1 ATCTTT
10757793 CAATTTACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.34, C:0.22, G:0.02, T:0.42
Consensus pattern (29 bp):
ATCTTTATCCAACCAATTTCAAATATTCA
Found at i:10767082 original size:23 final size:23
Alignment explanation
Indices: 10767054--10767098 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10767044 AGTTGGGTTC
* * *
10767054 AAACTTGATCGAGTATTATTATT
1 AAACTTAATCAAGTACTATTATT
10767077 AAACTTAATCAAGTACTATTAT
1 AAACTTAATCAAGTACTATTAT
10767099 ACTTCGAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
AAACTTAATCAAGTACTATTATT
Found at i:10768012 original size:134 final size:138
Alignment explanation
Indices: 10767869--10768129 Score: 352
Period size: 134 Copynumber: 1.9 Consensus size: 138
10767859 CTTGGATTAG
* * * *
10767869 GAAATAAATAAATAGTGATTGTGGATTTGCATG-AAAAACT-AGAAAATGTTTG-ACATCTTTTT
1 GAAATAAATAAATAATGATAGTGGATTTGCATGAAAAAACTAAAAAAATGTTTGTACATATTTTT
* *
10767931 TATAA-ATAGATAAGGTTGAAAATGTT-AGATTTATAGATTGAACTCAATATTTTTATATCATGT
66 TATAATATAGATAAGGTTGAAAATGTTAAGACTTATAGATTCAACTCAA-ATTTTTATATCATGT
10767994 AAAATAATA
130 AAAATAATA
* *
10768003 GAAATAAATAAATAATGATAGTGGATTTGTATGAAAAAACTAAAAAAATGTTTGATTTATATATT
1 GAAATAAATAAATAATGATAGTGGATTTGCATGAAAAAACTAAAAAAATGTTTG---TACATATT
* *
10768068 TTTTATAATTATAGATAAGGTTGAAAATGTTAAGACTTATTGATTCAACTCCAATTTTTATA
63 TTTTATAA-TATAGATAAGGTTGAAAATGTTAAGACTTATAGATTCAACTCAAATTTTTATA
10768130 GCACTCAAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
134 30 0.28
135 7 0.06
136 11 0.10
140 13 0.12
142 30 0.28
143 17 0.16
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (138 bp):
GAAATAAATAAATAATGATAGTGGATTTGCATGAAAAAACTAAAAAAATGTTTGTACATATTTTT
TATAATATAGATAAGGTTGAAAATGTTAAGACTTATAGATTCAACTCAAATTTTTATATCATGTA
AAATAATA
Found at i:10768140 original size:142 final size:134
Alignment explanation
Indices: 10767869--10768144 Score: 340
Period size: 142 Copynumber: 2.0 Consensus size: 134
10767859 CTTGGATTAG
* * * *
10767869 GAAATAAATAAATAGTGATTGTGGATTTGCATGAAAAACTAGAAAATGTTTGACATCTTTTTTAT
1 GAAATAAATAAATAATGATAGTGGATTTGCATGAAAAACTAAAAAATGTTTGACATATTTTTTAT
* * * *
10767934 AAATAGATAAGGTTGAAAATGTTAGATTTATAGATTGAACTCAATATTTTTATATCATGTAAAAT
66 AAATAGATAAGGTTGAAAATGTTAGACTTATAGATTCAACTCAATATTTTTATAGCATGCAAAAT
10767999 AATA
131 AATA
* *
10768003 GAAATAAATAAATAATGATAGTGGATTTGTATGAAAAAACTAAAAAAATGTTTGATTTATATATT
1 GAAATAAATAAATAATGATAGTGGATTTGCATG-AAAAACT-AAAAAATGTTTG----ACATATT
* *
10768068 TTTTATAATTATAGATAAGGTTGAAAATGTTAAGACTTATTGATTCAACTCCA-ATTTTTATAGC
60 TTTTATAA--ATAGATAAGGTTGAAAATGTT-AGACTTATAGATTCAACTCAATATTTTTATAGC
10768132 ACT-CAAAATAATA
122 A-TGCAAAATAATA
10768145 ACAAAATAAA
Statistics
Matches: 120, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
134 30 0.25
135 7 0.06
136 11 0.09
140 13 0.11
142 41 0.34
143 18 0.15
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.37
Consensus pattern (134 bp):
GAAATAAATAAATAATGATAGTGGATTTGCATGAAAAACTAAAAAATGTTTGACATATTTTTTAT
AAATAGATAAGGTTGAAAATGTTAGACTTATAGATTCAACTCAATATTTTTATAGCATGCAAAAT
AATA
Found at i:10775566 original size:59 final size:58
Alignment explanation
Indices: 10775491--10775689 Score: 204
Period size: 59 Copynumber: 3.3 Consensus size: 58
10775481 ATACTAAAGA
*
10775491 ATTTTATCAAATTATATATTTTTATTATATTATATTTAATAATAATTATTTTAAATTAT
1 ATTTTAT-ATATTATATATTTTTATTATATTATATTTAATAATAATTATTTTAAATTAT
* * * * * * * *
10775550 ATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAATAA-TA-TTTAATACTAAGA
1 ATTTTATA-TATTATATATTTTTATTATATTATATTTA-ATAATAATTATTTTAA-A-TTA-T
* * *
10775611 ATTTTTTTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTAT
1 A-TTTTATATATTATATATTTTTATTATATTATATTTAATAATAATTATTTTAAATTAT
10775670 ATTTTATATTATTATATATT
1 ATTTTATA-TATTATATATT
10775690 ATGATTTTAG
Statistics
Matches: 109, Mismatches: 22, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
58 12 0.11
59 43 0.39
60 18 0.17
61 25 0.23
62 11 0.10
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (58 bp):
ATTTTATATATTATATATTTTTATTATATTATATTTAATAATAATTATTTTAAATTAT
Found at i:10775633 original size:18 final size:18
Alignment explanation
Indices: 10775611--10775745 Score: 94
Period size: 18 Copynumber: 8.0 Consensus size: 18
10775601 AATACTAAGA
10775611 ATTTTT-TTAAATTATAT
1 ATTTTTATTAAATTATAT
10775628 ATTTTTATTAAA-T-TAT
1 ATTTTTATTAAATTATAT
* *
10775644 A--TTTAAT-AATAAT-T
1 ATTTTTATTAAATTATAT
* * *
10775658 ATTTTAAATTATATTTTAT
1 ATTTT-TATTAAATTATAT
* * *
10775677 ATTATTA-TATATTAT-G
1 ATTTTTATTAAATTATAT
*
10775693 A-TTTTAGTAAATTCATAT
1 ATTTTTATTAAATT-ATAT
10775711 A-TTTTATTAAATTATAT
1 ATTTTTATTAAATTATAT
10775728 ATTTTTATTAAATTATAT
1 ATTTTTATTAAATTATAT
10775746 TTAATAATAA
Statistics
Matches: 91, Mismatches: 15, Indels: 23
0.71 0.12 0.18
Matches are distributed among these distances:
13 2 0.02
14 7 0.08
15 5 0.05
16 12 0.13
17 23 0.25
18 37 0.41
19 5 0.05
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (18 bp):
ATTTTTATTAAATTATAT
Found at i:10775683 original size:120 final size:121
Alignment explanation
Indices: 10775395--10775711 Score: 557
Period size: 120 Copynumber: 2.6 Consensus size: 121
10775385 AAGTAGACTA
*
10775395 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTT-TTATATATTATGATTTTAA
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATA-TTATTATATATTATGATTTTAG
10775459 TAAATTCATATAAGAATATTTAATACTAAAGAATTTTATCAAATTATATATTTTTAT
65 TAAATTCATATAAGAATATTTAATACTAAAGAATTTTATCAAATTATATATTTTTAT
* *
10775516 TATATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATATTATTATATATTATGATTTTAGT
* * *
10775581 AAATTCATATAATAATATTTAATACT-AAGAATTTTTTTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAAGAATTTTATCAAATTATATATTTTTAT
10775636 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATATTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATATTATTATATATTATGATTTTAGT
10775701 AAATTCATATA
66 AAATTCATATA
10775712 TTTTATTAAA
Statistics
Matches: 187, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 102 0.55
121 85 0.45
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (121 bp):
TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATATTATTATATATTATGATTTTAGT
AAATTCATATAAGAATATTTAATACTAAAGAATTTTATCAAATTATATATTTTTAT
Found at i:10775712 original size:41 final size:40
Alignment explanation
Indices: 10775547--10775730 Score: 116
Period size: 41 Copynumber: 4.6 Consensus size: 40
10775537 TATTTTAAAT
*
10775547 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATATTATTATATATTATGATTTTAGTAAATT-A
* * * * **
10775588 TATA-ATAATA-T-TTA-ATACTAAGAATTTTTTTAAATTA
1 TATATTTTATATTATTATATATTATG-ATTTTAGTAAATTA
* **
10775625 TATATTTT-TATTAAATTATAT-TTAATAATAATTATTTTAAA-T-
1 TATATTTTATATT--ATTATATATT-ATGAT--TT-TAGTAAATTA
10775667 TATATTTTATATTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATATTATTATATATTATGATTTTAGTAAATT-A
*
10775708 TATATTTTAT-TAAATTATATATT
1 TATATTTTATAT-TATTATATATT
10775731 TTTATTAAAT
Statistics
Matches: 111, Mismatches: 15, Indels: 34
0.69 0.09 0.21
Matches are distributed among these distances:
37 13 0.12
38 21 0.19
39 4 0.04
40 5 0.05
41 41 0.37
42 13 0.12
43 7 0.06
44 7 0.06
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (40 bp):
TATATTTTATATTATTATATATTATGATTTTAGTAAATTA
Found at i:10778253 original size:13 final size:13
Alignment explanation
Indices: 10778235--10778263 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
10778225 CCTTGTTTGC
10778235 ACAATGTTGTCAT
1 ACAATGTTGTCAT
10778248 ACAATGTTGTCAT
1 ACAATGTTGTCAT
10778261 ACA
1 ACA
10778264 TTTCTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (13 bp):
ACAATGTTGTCAT
Found at i:10787186 original size:22 final size:23
Alignment explanation
Indices: 10787155--10787207 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
10787145 ATATATAAAC
*
10787155 GTATACTAAAAAA-CATATGTGCAT
1 GTATA-TAAAAAATC-TATGCGCAT
10787179 -TATATAAAAAATCTATGCGCAT
1 GTATATAAAAAATCTATGCGCAT
10787201 GTATATA
1 GTATATA
10787208 GAGTAGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (23 bp):
GTATATAAAAAATCTATGCGCAT
Found at i:10787188 original size:23 final size:23
Alignment explanation
Indices: 10787162--10787207 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10787152 AACGTATACT
*
10787162 AAAAAACATATGTGCAT-TATATA
1 AAAAAAC-TATGCGCATGTATATA
*
10787185 AAAAATCTATGCGCATGTATATA
1 AAAAAACTATGCGCATGTATATA
10787208 GAGTAGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (23 bp):
AAAAAACTATGCGCATGTATATA
Found at i:10789356 original size:3 final size:3
Alignment explanation
Indices: 10789348--10789384 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10789338 AACGGTACTC
10789348 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10789385 GGATCTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10798909 original size:16 final size:16
Alignment explanation
Indices: 10798888--10798921 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10798878 GTTCGAAATC
10798888 TCCATTCTGTATGTAT
1 TCCATTCTGTATGTAT
10798904 TCCATTCTGTATGTAT
1 TCCATTCTGTATGTAT
10798920 TC
1 TC
10798922 ATCCCTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.50
Consensus pattern (16 bp):
TCCATTCTGTATGTAT
Found at i:10803888 original size:12 final size:12
Alignment explanation
Indices: 10803871--10803902 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10803861 GTATGAATGA
10803871 AATAATAATAGT
1 AATAATAATAGT
*
10803883 AATAATAATATT
1 AATAATAATAGT
10803895 AATAATAA
1 AATAATAA
10803903 CAATAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:10804008 original size:30 final size:30
Alignment explanation
Indices: 10803942--10804008 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
10803932 GCATAGTCAT
*
10803942 GATAAAAACAAAAAAAATGGATCAAATTGA
1 GATAAAAACAAAAAAAATGGAGCAAATTGA
* * * *
10803972 GTTAAAAAC-GAAAAAATGGGGCAAATTTA
1 GATAAAAACAAAAAAAATGGAGCAAATTGA
10804001 GAATAAAA
1 G-ATAAAA
10804009 TTTAAAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.60, C:0.06, G:0.16, T:0.18
Consensus pattern (30 bp):
GATAAAAACAAAAAAAATGGAGCAAATTGA
Found at i:10806755 original size:27 final size:27
Alignment explanation
Indices: 10806698--10806770 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
10806688 ATCTTGTCAG
* *
10806698 CCTTTGTGGCATACTCTGAATGAATCG
1 CCTTTGTGGCATACTCTGAACGAATCA
* * * *
10806725 CCTTTGGGGCATACTTTGTACGGATCA
1 CCTTTGTGGCATACTCTGAACGAATCA
*
10806752 CCTTTGTGGCGTACTCTGA
1 CCTTTGTGGCATACTCTGA
10806771 TTAAATTGCT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (27 bp):
CCTTTGTGGCATACTCTGAACGAATCA
Found at i:10808952 original size:45 final size:44
Alignment explanation
Indices: 10808888--10808983 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
10808878 GGAATAGAAC
10808888 TGTAATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGT-ATTC-ATGTGTTTGGTTGAA
* *
10808933 TGTAATGGACTAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAA
*
10808977 TGGAATG
1 TGTAATG
10808984 ATGTTGTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAA
Found at i:10809461 original size:120 final size:120
Alignment explanation
Indices: 10809124--10809606 Score: 851
Period size: 120 Copynumber: 4.0 Consensus size: 120
10809114 TAATCATATA
*
10809124 TTAACATAGTTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
* * *
10809189 AATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAAT
66 AATAGTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
10809244 TTAACATAATTATTATTAAATATAATTT-ATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
* * * * *
10809308 AATATTCTCATATGAATTTTCTAAAATCATAATATGTAATACTATAAAATATAAT
66 AATAGTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
10809363 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
*
10809428 AATAGTCTTAAATGAATTTACTAAAATCATAATATATAATAATATAAAATATAAT
66 AATAGTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
10809483 TTAACATAATTATTATTAAATATAATTTATATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTAACATAATTATTATTAAATATAATTTA-ATAAAAATATATAATTTAATAAAATTCTTAATATT
*
10809548 AAATAGTCTTAAATGAATTTACTAAAATCATAATATACAATACTATAAAATATAAT
65 AAATAGTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
10809604 TTA
1 TTA
10809607 TAATCTACTT
Statistics
Matches: 350, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
119 117 0.33
120 141 0.40
121 92 0.26
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
AATAGTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
Found at i:10809483 original size:239 final size:241
Alignment explanation
Indices: 10809124--10809606 Score: 853
Period size: 239 Copynumber: 2.0 Consensus size: 241
10809114 TAATCATATA
*
10809124 TTAACATAGTTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
* * * *
10809189 AATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTTAACATAAT
66 AATAGTCTTAAATGAATTTACTAAAATCATAATATATAATAATATAAAATATAATTTAACATAAT
*
10809254 TATTATTAAATATAA-TT-TATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTC
131 TATTATTAAATATAATTTATATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAGTCTC
* * **
10809317 ATATGAATTTTCTAAAATCATAATATGTAATACTATAAAATATAAT
196 AAATGAATTTACTAAAATCATAATATACAATACTATAAAATATAAT
10809363 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
10809428 AATAGTCTTAAATGAATTTACTAAAATCATAATATATAATAATATAAAATATAATTTAACATAAT
66 AATAGTCTTAAATGAATTTACTAAAATCATAATATATAATAATATAAAATATAATTTAACATAAT
*
10809493 TATTATTAAATATAATTTATATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAGTCTT
131 TATTATTAAATATAATTTATATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAGTCTC
10809558 AAATGAATTTACTAAAATCATAATATACAATACTATAAAATATAAT
196 AAATGAATTTACTAAAATCATAATATACAATACTATAAAATATAAT
10809604 TTA
1 TTA
10809607 TAATCTACTT
Statistics
Matches: 231, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
239 140 0.61
240 2 0.01
241 89 0.39
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (241 bp):
TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
AATAGTCTTAAATGAATTTACTAAAATCATAATATATAATAATATAAAATATAATTTAACATAAT
TATTATTAAATATAATTTATATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAGTCTC
AAATGAATTTACTAAAATCATAATATACAATACTATAAAATATAAT
Found at i:10811072 original size:49 final size:49
Alignment explanation
Indices: 10811000--10811102 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
10810990 AAAAAAAACT
* *
10811000 AATTAAAATTAAGTATAATATCATGAATCAAAAGGTGAACACTTTATAA
1 AATTAAAATTAAGTATAATATCATGAATCAAAAGCTCAACACTTTATAA
*
10811049 AATTAAAATTAAGT-TCAATATCATGAATCAAAAGCTCAAGACTTTATAA
1 AATTAAAATTAAGTAT-AATATCATGAATCAAAAGCTCAACACTTTATAA
10811098 AATTA
1 AATTA
10811103 TAACACATGA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
48 1 0.02
49 49 0.98
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (49 bp):
AATTAAAATTAAGTATAATATCATGAATCAAAAGCTCAACACTTTATAA
Found at i:10814800 original size:22 final size:22
Alignment explanation
Indices: 10814775--10814818 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10814765 ATAAGAAAAC
*
10814775 GATGGAAGAAGAAGCAGAAATT
1 GATGGAAGAAGAAGCAAAAATT
10814797 GATGGAAGAAGAAGCAAAAATT
1 GATGGAAGAAGAAGCAAAAATT
10814819 ACCTCTGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.30, T:0.14
Consensus pattern (22 bp):
GATGGAAGAAGAAGCAAAAATT
Found at i:10815867 original size:9 final size:9
Alignment explanation
Indices: 10815853--10815910 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
10815843 TTTGGTTAAA
10815853 AATTAACCG
1 AATTAACCG
*
10815862 AATTAACTG
1 AATTAACCG
10815871 AATT-ACCAG
1 AATTAACC-G
*
10815880 AATTAACTG
1 AATTAACCG
*
10815889 AATTACCCG
1 AATTAACCG
*
10815898 AATTAACCA
1 AATTAACCG
10815907 AATT
1 AATT
10815911 GAATCACTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 2 0.05
9 36 0.90
10 2 0.05
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:10815882 original size:18 final size:18
Alignment explanation
Indices: 10815861--10815904 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
10815851 AAAATTAACC
10815861 GAATTAACTGAATTACCA
1 GAATTAACTGAATTACCA
*
10815879 GAATTAACTGAATTACCC
1 GAATTAACTGAATTACCA
10815897 GAATTAAC
1 GAATTAAC
10815905 CAAATTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.27
Consensus pattern (18 bp):
GAATTAACTGAATTACCA
Found at i:10815891 original size:27 final size:27
Alignment explanation
Indices: 10815852--10815910 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
10815842 TTTTGGTTAA
*
10815852 AAATTAACCGAATTAACTGAATT-ACC
1 AAATTAACCGAATTAACCGAATTAACC
* *
10815878 AGAATTAACTGAATTACCCGAATTAACC
1 A-AATTAACCGAATTAACCGAATTAACC
10815906 AAATT
1 AAATT
10815911 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.04
27 23 0.82
28 4 0.14
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (27 bp):
AAATTAACCGAATTAACCGAATTAACC
Found at i:10815910 original size:18 final size:18
Alignment explanation
Indices: 10815852--10815910 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
10815842 TTTTGGTTAA
*
10815852 AAATTAACCGAATTAACT
1 AAATTACCCGAATTAACT
* *
10815870 GAATTACCAGAATTAACT
1 AAATTACCCGAATTAACT
* *
10815888 GAATTACCCGAATTAACC
1 AAATTACCCGAATTAACT
10815906 AAATT
1 AAATT
10815911 GAATCACTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (18 bp):
AAATTACCCGAATTAACT
Found at i:10816606 original size:26 final size:28
Alignment explanation
Indices: 10816577--10816640 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 28
10816567 ATTTATTTTA
*
10816577 AATTAATGT-AAAATAA-AGAGAAATAT
1 AATTAATGTGAAAAAAACAGAGAAATAT
10816603 AATTAATGTGGCAAAAAAAACAGAGAAATAT
1 AATTAATGT-G--AAAAAAACAGAGAAATAT
10816634 AATTAAT
1 AATTAAT
10816641 AGTTGTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 9 0.28
30 6 0.19
31 17 0.53
ACGTcount: A:0.59, C:0.03, G:0.12, T:0.25
Consensus pattern (28 bp):
AATTAATGTGAAAAAAACAGAGAAATAT
Found at i:10817960 original size:97 final size:96
Alignment explanation
Indices: 10817794--10817991 Score: 369
Period size: 97 Copynumber: 2.1 Consensus size: 96
10817784 TGTACAATCA
*
10817794 AGATTATTTTAATTAAATAACTCCCCACAAAGTTATATTTAAGTTAAAATAATGGCTAAAGTAAA
1 AGATTATTTTAATTAAACAACTCCCCACAAAGTTATATTTAAGTTAAAATAATGGCTAAAGTAAA
10817859 AAGATTGTTAATATGTGTAGAGTCCTACGGTT
66 AAGA-TGTTAATATGTGTAGAGTCCTACGGTT
10817891 AGATTATTTTAATTAAACAACTCCCCACAAAGTTATATTTAAGTTAAAATAATGGCTAAAGTAAA
1 AGATTATTTTAATTAAACAACTCCCCACAAAGTTATATTTAAGTTAAAATAATGGCTAAAGTAAA
*
10817956 AAGATGTTAATATGTGTAGAGTCTTACGGTT
66 AAGATGTTAATATGTGTAGAGTCCTACGGTT
10817987 AGATT
1 AGATT
10817992 CACATATTAA
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
96 31 0.31
97 68 0.69
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (96 bp):
AGATTATTTTAATTAAACAACTCCCCACAAAGTTATATTTAAGTTAAAATAATGGCTAAAGTAAA
AAGATGTTAATATGTGTAGAGTCCTACGGTT
Found at i:10820016 original size:14 final size:14
Alignment explanation
Indices: 10820006--10820034 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10819996 CATTTTTCCT
10820006 CTTTTTCTTTTCTC
1 CTTTTTCTTTTCTC
10820020 CTTTTTCTTTT-TC
1 CTTTTTCTTTTCTC
10820033 CT
1 CT
10820035 ACCCTAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
CTTTTTCTTTTCTC
Found at i:10826487 original size:15 final size:15
Alignment explanation
Indices: 10826462--10826496 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10826452 GACTTTATTT
*
10826462 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
10826476 TAATTAATATTAAGA
1 TAATTAATATTAAGA
10826491 TAATTA
1 TAATTA
10826497 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:10828028 original size:55 final size:55
Alignment explanation
Indices: 10827944--10828055 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
10827934 GAGTTAAAGT
10827944 CAGGTTTAATCCAGTTACTGCCAACTTTTCGTGGGTTGCAAAAAGAAAATCCCCA
1 CAGGTTTAATCCAGTTACTGCCAACTTTTCGTGGGTTGCAAAAAGAAAATCCCCA
*
10827999 CAGGTTTAATCCAGTTACTGCCAACTTTTCGTGGGTTGCAAAATGAAAATCCCCA
1 CAGGTTTAATCCAGTTACTGCCAACTTTTCGTGGGTTGCAAAAAGAAAATCCCCA
10828054 CA
1 CA
10828056 AGCATCTGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (55 bp):
CAGGTTTAATCCAGTTACTGCCAACTTTTCGTGGGTTGCAAAAAGAAAATCCCCA
Found at i:10830474 original size:4 final size:4
Alignment explanation
Indices: 10830465--10830529 Score: 53
Period size: 4 Copynumber: 15.5 Consensus size: 4
10830455 CAATCCAATT
* *
10830465 TTTA TTTA TTTA TTTA TTTA TTATT TTTA CCTTA TTTA -TTA CTTTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TT-TA TTTA -TTTA TTTA TTTA -TTTA -TTTA
10830516 TTT- TATTA TTTA TT
1 TTTA T-TTA TTTA TT
10830530 ACTTATTTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
3 4 0.08
4 32 0.64
5 14 0.28
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:10830499 original size:18 final size:17
Alignment explanation
Indices: 10830473--10830537 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 17
10830463 TTTTTATTTA
*
10830473 TTTATTTATTTATTATT
1 TTTACTTATTTATTATT
10830490 TTTACCTTATTTATTACTT
1 TTTA-CTTATTTATTA-TT
10830509 TATT--TTATTTTATTATT
1 T-TTACTTA-TTTATTATT
10830526 TATTACTTATTT
1 T-TTACTTATTT
10830538 GGATATTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
17 13 0.32
18 20 0.49
19 6 0.15
20 2 0.05
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTACTTATTTATTATT
Found at i:10830711 original size:22 final size:22
Alignment explanation
Indices: 10830683--10830732 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
10830673 GACCAGAATG
* *
10830683 CCTGCAGCCAAACTACCC-TATT
1 CCTGCAGCC-AACCACCCTTATC
10830705 CCTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAACCACCCTTATC
10830727 CCTGCA
1 CCTGCA
10830733 CCCTAGCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.24, C:0.46, G:0.10, T:0.20
Consensus pattern (22 bp):
CCTGCAGCCAACCACCCTTATC
Found at i:10835086 original size:15 final size:14
Alignment explanation
Indices: 10835066--10835104 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
10835056 TAAAAATTAG
10835066 AAACTAAGAAAAATA
1 AAACTAAGAAAAA-A
10835081 AAACTAA-AAAAAA
1 AAACTAAGAAAAAA
*
10835094 AATCTAAGAAA
1 AAACTAAGAAA
10835105 TTAATAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 7 0.32
14 8 0.36
15 7 0.32
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (14 bp):
AAACTAAGAAAAAA
Found at i:10839231 original size:15 final size:15
Alignment explanation
Indices: 10839211--10839240 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10839201 TTCACTATTA
*
10839211 TGTCTTTTGTATTTT
1 TGTCTTTAGTATTTT
10839226 TGTCTTTAGTATTTT
1 TGTCTTTAGTATTTT
10839241 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (15 bp):
TGTCTTTAGTATTTT
Found at i:10840208 original size:22 final size:23
Alignment explanation
Indices: 10840177--10840227 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
10840167 GTTCATGCGT
*
10840177 CTGTTCTTGCT-GGGAATATTTA
1 CTGTTCTTGCTAGAGAATATTTA
* *
10840199 CTGTTTTTGCTAGAGAATATTTC
1 CTGTTCTTGCTAGAGAATATTTA
10840222 CTGTTC
1 CTGTTC
10840228 ACTTGTCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.47
Consensus pattern (23 bp):
CTGTTCTTGCTAGAGAATATTTA
Found at i:10840249 original size:57 final size:57
Alignment explanation
Indices: 10840165--10840300 Score: 179
Period size: 57 Copynumber: 2.4 Consensus size: 57
10840155 AATTAATATA
* * *
10840165 ATGTTCA-TGCGTCTGTTCTTGCTGGGAATATTTACTGTTTTTG-CTAGAGAATATTTC
1 ATGTTCACT-CGTCTTTTCTTGCTGGGAATATTTACTATTTTCGTC-AGAGAATATTTC
* *
10840222 CTGTTCACTTGTCTTTTCTTG-TAGGGAATATTTACTATTTTCGTCAGAGAATATTTC
1 ATGTTCACTCGTCTTTTCTTGCT-GGGAATATTTACTATTTTCGTCAGAGAATATTTC
10840279 ATGTTCACTCGTCTTTTCTTGC
1 ATGTTCACTCGTCTTTTCTTGC
10840301 ATCAATTTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
56 1 0.01
57 65 0.96
58 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.18, T:0.47
Consensus pattern (57 bp):
ATGTTCACTCGTCTTTTCTTGCTGGGAATATTTACTATTTTCGTCAGAGAATATTTC
Found at i:10853157 original size:6 final size:6
Alignment explanation
Indices: 10853146--10853194 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
10853136 AACAAAATAG
**
10853146 ATAAAT ATAAAT ATAAATAT ATAAAT ATTTAT ATAAAT A-AAAT ATAAAT
1 ATAAAT ATAAAT AT-AA-AT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
10853195 GGAACAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 5 0.14
6 23 0.64
7 4 0.11
8 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATAAAT
Found at i:10853169 original size:20 final size:20
Alignment explanation
Indices: 10853140--10853184 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10853130 TAGTGAAACA
10853140 AAATAGATAAATATAAATAT
1 AAATAGATAAATATAAATAT
* **
10853160 AAATATATAAATATTTATAT
1 AAATAGATAAATATAAATAT
10853180 AAATA
1 AAATA
10853185 AAATATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAATAGATAAATATAAATAT
Found at i:10856629 original size:83 final size:84
Alignment explanation
Indices: 10856510--10856767 Score: 299
Period size: 84 Copynumber: 3.1 Consensus size: 84
10856500 AAAATTATAT
* * *
10856510 CAAAATCAAATTAAAATC-TGTTAAACGGC-AGGAATAAATCTCGAAACAGA-ATTATATGATTA
1 CAAAATCAAA-TAAAATCTTGTTAAATGGCGA-GAATAAATCCCGAAACAGATATTATATAATT-
* * **
10856572 C-GTCTTTTTTTGGAAACAAAA
63 CTATCCTAATTTGGAAACAAAA
* * * * *
10856593 CAATATCGAATAAAATCTTTTTAAATGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTCTA
1 CAAAATCAAATAAAATCTTGTTAAATGGCGAGAATAAATCCCGAAACAGATATTATATAATTCTA
10856658 TCCTAATTTGGAAACAAAA
66 TCCTAATTTGGAAACAAAA
* * * *
10856677 TAAAATCAAATAAAATCTTGTTAAATGGCGAGAATAAATCCCAAAACAGATTTTATTTAATTCTA
1 CAAAATCAAATAAAATCTTGTTAAATGGCGAGAATAAATCCCGAAACAGATATTATATAATTCTA
*
10856742 TTCTAATTTGGAAACAAAA
66 TCCTAATTTGGAAACAAAA
*
10856761 TAAAATC
1 CAAAATC
10856768 TTGTTAAACG
Statistics
Matches: 153, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
82 7 0.05
83 36 0.24
84 110 0.72
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (84 bp):
CAAAATCAAATAAAATCTTGTTAAATGGCGAGAATAAATCCCGAAACAGATATTATATAATTCTA
TCCTAATTTGGAAACAAAA
Found at i:10856694 original size:84 final size:84
Alignment explanation
Indices: 10856580--10856767 Score: 322
Period size: 84 Copynumber: 2.2 Consensus size: 84
10856570 TACGTCTTTT
* * * * *
10856580 TTTGGAAACAAAACAATATCGAATAAAATCTTTTTAAATGGCGAGAATAAATCCCGAAACAGATT
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAATGGCGAGAATAAATCCCAAAACAGATT
10856645 TTATTTAATTCTATCCTAA
66 TTATTTAATTCTATCCTAA
10856664 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAATGGCGAGAATAAATCCCAAAACAGATT
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAATGGCGAGAATAAATCCCAAAACAGATT
*
10856729 TTATTTAATTCTATTCTAA
66 TTATTTAATTCTATCCTAA
10856748 TTTGGAAACAAAATAAAATC
1 TTTGGAAACAAAATAAAATC
10856768 TTGTTAAACG
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 98 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (84 bp):
TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAATGGCGAGAATAAATCCCAAAACAGATT
TTATTTAATTCTATCCTAA
Found at i:10856939 original size:79 final size:81
Alignment explanation
Indices: 10856811--10857140 Score: 306
Period size: 78 Copynumber: 4.1 Consensus size: 81
10856801 TTTTATTTTA
* * * * * **
10856811 TTTAATTT-CTCGTTTTTGGCAACAAAATCAAAA--TGTAAT-AAATCTGTTGAACGGTGGGAAT
1 TTTATTTTACTCGTTTTTGGAAATAAAATCAAAATTTGAAATAAAATCAGTTGAACGACGGGAAT
*
10856872 AAATCCTGAAATGGAT
66 AAATCCTGAAACGGAT
*
10856888 TTTATTTTACTCGTTTTTGGAAATAAAA-CAAAATTTGAAATAAAATC-GTTGAAC-ATGGGAAT
1 TTTATTTTACTCGTTTTTGGAAATAAAATCAAAATTTGAAATAAAATCAGTTGAACGACGGGAAT
* *
10856950 CAATCCCGAAACGGAT
66 AAATCCTGAAACGGAT
* * * *
10856966 TTTATTTTACTTGTTTTTCGAAATAAAA-CAAAATTTGGAATAAAATC-GTTAAACGACGGGAAT
1 TTTATTTTACTCGTTTTTGGAAATAAAATCAAAATTTGAAATAAAATCAGTTGAACGACGGGAAT
*
10857029 CAATCCTGAAACGGAT
66 AAATCCTGAAACGGAT
* *
10857045 TTTATTTACCTTTAATTTCTCG--TTTGGAAAGAAAATCAAAATAAT-AGAATAAAATCAGTTGA
1 TTTA--T---TTT-A---CTCGTTTTTGGAAATAAAATCAAAAT-TTGA-AATAAAATCAGTTGA
*
10857107 ACGGCGGGAATAAATCCTGAAACGGAT
55 ACGACGGGAATAAATCCTGAAACGGAT
10857134 TTTATTT
1 TTTATTT
10857141 ACTTTTAATT
Statistics
Matches: 213, Mismatches: 22, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
77 12 0.06
78 87 0.41
79 38 0.18
80 5 0.02
81 1 0.00
84 5 0.02
85 1 0.00
86 11 0.05
87 7 0.03
88 13 0.06
89 33 0.15
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (81 bp):
TTTATTTTACTCGTTTTTGGAAATAAAATCAAAATTTGAAATAAAATCAGTTGAACGACGGGAAT
AAATCCTGAAACGGAT
Found at i:10857053 original size:78 final size:79
Alignment explanation
Indices: 10856850--10857144 Score: 310
Period size: 78 Copynumber: 3.6 Consensus size: 79
10856840 AAAATGTAAT
** * * *
10856850 AAATCTGTTGAACGGTGGGAATAAATCCTGAAATGGATTTTATTTTACTCGTTTTTGGAAATAAA
1 AAATC-GTTGAACGACGGGAATAAATCCTGAAACGGATTTTATTTTACTTGTTTTTCGAAATAAA
*
10856915 ACAAAATTTGAAATA
65 ACAAAATTTGGAATA
* * *
10856930 AAATCGTTGAAC-ATGGGAATCAATCCCGAAACGGATTTTATTTTACTTGTTTTTCGAAATAAAA
1 AAATCGTTGAACGACGGGAATAAATCCTGAAACGGATTTTATTTTACTTGTTTTTCGAAATAAAA
10856994 CAAAATTTGGAATA
66 CAAAATTTGGAATA
* *
10857008 AAATCGTTAAACGACGGGAATCAATCCTGAAACGGATTTTA-TTTACCTT-TAATTTCTCGTTTG
1 AAATCGTTGAACGACGGGAATAAATCCTGAAACGGATTTTATTTTA-CTTGT--TTT-TC-----
* * *
10857071 GAAAGAAAATCAAAATAATAGAATA
57 GAAATAAAA-CAAAAT-TTGGAATA
*
10857096 AAATCAGTTGAACGGCGGGAATAAATCCTGAAACGGATTTTA-TTTACTT
1 AAATC-GTTGAACGACGGGAATAAATCCTGAAACGGATTTTATTTTACTT
10857145 TTAATTTTGG
Statistics
Matches: 186, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
78 75 0.40
79 36 0.19
80 8 0.04
81 2 0.01
86 8 0.04
87 6 0.03
88 14 0.08
89 37 0.20
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.33
Consensus pattern (79 bp):
AAATCGTTGAACGACGGGAATAAATCCTGAAACGGATTTTATTTTACTTGTTTTTCGAAATAAAA
CAAAATTTGGAATA
Found at i:10864533 original size:27 final size:27
Alignment explanation
Indices: 10864495--10864549 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
10864485 GGGTCATTTG
*
10864495 TCTTTATCGTAAATGACTTAATTACCA
1 TCTTTATCGTAAAAGACTTAATTACCA
* *
10864522 TCTTTATGGTAAAAGACTTGATTACCA
1 TCTTTATCGTAAAAGACTTAATTACCA
10864549 T
1 T
10864550 TTGATAGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (27 bp):
TCTTTATCGTAAAAGACTTAATTACCA
Found at i:10876230 original size:6 final size:6
Alignment explanation
Indices: 10876221--10876253 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10876211 GTCTTCTTCT
10876221 TTTTTC TTTTTC TTTTTC TTTTT- TTTTT- TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
10876254 GCTTGTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (6 bp):
TTTTTC
Found at i:10876233 original size:13 final size:13
Alignment explanation
Indices: 10876212--10876253 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
10876202 TACAAAATAG
*
10876212 TCTTCTTCTTTTT
1 TCTTTTTCTTTTT
10876225 TCTTTTTC-TTTT
1 TCTTTTTCTTTTT
10876237 TCTTTTT-TTTTT
1 TCTTTTTCTTTTT
10876249 T-TTTT
1 TCTTTT
10876254 GCTTGTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 4 0.15
12 16 0.59
13 7 0.26
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TCTTTTTCTTTTT
Found at i:10876239 original size:19 final size:18
Alignment explanation
Indices: 10876212--10876253 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
10876202 TACAAAATAG
*
10876212 TCTTCTTCTTTTTTCTTTT
1 TCTTTTTCTTTTTT-TTTT
10876231 TCTTTTTCTTTTTTTTTT
1 TCTTTTTCTTTTTTTTTT
10876249 T-TTTT
1 TCTTTT
10876254 GCTTGTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.18
18 5 0.23
19 13 0.59
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (18 bp):
TCTTTTTCTTTTTTTTTT
Found at i:10879118 original size:3 final size:3
Alignment explanation
Indices: 10879112--10879143 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10879102 AATGATGAAA
10879112 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
10879144 AATATTGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:10888654 original size:3 final size:3
Alignment explanation
Indices: 10888648--10888691 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
10888638 AATGATGAAA
10888648 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
10888692 AATAATAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:10890421 original size:10 final size:10
Alignment explanation
Indices: 10890408--10890481 Score: 77
Period size: 10 Copynumber: 7.9 Consensus size: 10
10890398 TACAATCTCT
10890408 TAACTTTTGA
1 TAACTTTTGA
10890418 TAACTTTTGA
1 TAACTTTTGA
10890428 TAACTTTTGA
1 TAACTTTTGA
*
10890438 CAACTTTTGA
1 TAACTTTTGA
*
10890448 T-AC--CT--
1 TAACTTTTGA
10890453 TAACTTTTGA
1 TAACTTTTGA
*
10890463 TAACCTTTGA
1 TAACTTTTGA
*
10890473 CAACTTTTG
1 TAACTTTTG
10890482 TTTATTTGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
5 1 0.02
6 2 0.04
7 1 0.02
8 1 0.02
9 2 0.04
10 45 0.87
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.46
Consensus pattern (10 bp):
TAACTTTTGA
Found at i:10890433 original size:20 final size:20
Alignment explanation
Indices: 10890408--10890481 Score: 86
Period size: 20 Copynumber: 4.0 Consensus size: 20
10890398 TACAATCTCT
*
10890408 TAACTTTTGATAACTTTTGA
1 TAACTTTTGACAACTTTTGA
10890428 TAACTTTTGACAACTTTTGA
1 TAACTTTTGACAACTTTTGA
*
10890448 T-AC-CTT---AACTTTTGA
1 TAACTTTTGACAACTTTTGA
*
10890463 TAACCTTTGACAACTTTTG
1 TAACTTTTGACAACTTTTG
10890482 TTTATTTGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
15 10 0.22
16 2 0.04
17 2 0.04
18 2 0.04
19 2 0.04
20 28 0.61
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.46
Consensus pattern (20 bp):
TAACTTTTGACAACTTTTGA
Found at i:10890459 original size:15 final size:16
Alignment explanation
Indices: 10890439--10890469 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10890429 AACTTTTGAC
10890439 AACTTTTGAT-ACCTT
1 AACTTTTGATAACCTT
10890454 AACTTTTGATAACCTT
1 AACTTTTGATAACCTT
10890470 TGACAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.45
Consensus pattern (16 bp):
AACTTTTGATAACCTT
Found at i:10891107 original size:21 final size:21
Alignment explanation
Indices: 10891072--10891141 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 21
10891062 GTAACAATAC
* *
10891072 TAACTTGTTTTAAAACAATTT
1 TAACTTGATTGAAAACAATTT
*
10891093 TAACTTGATTG-AAA-ATTTT
1 TAACTTGATTGAAAACAATTT
** *
10891112 TAACTCAATTGAAATC-ATTT
1 TAACTTGATTGAAAACAATTT
10891132 TAACTTGATT
1 TAACTTGATT
10891142 TCATCATTTC
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
19 13 0.34
20 16 0.42
21 9 0.24
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (21 bp):
TAACTTGATTGAAAACAATTT
Found at i:10891114 original size:19 final size:19
Alignment explanation
Indices: 10891089--10891141 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
10891079 TTTTAAAACA
10891089 ATTTTAACTTGATTGAAA-
1 ATTTTAACTTGATTGAAAT
**
10891107 ATTTTTAACTCAATTGAAAT
1 A-TTTTAACTTGATTGAAAT
10891127 CATTTTAACTTGATT
1 -ATTTTAACTTGATT
10891142 TCATCATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 15 0.54
20 11 0.39
21 1 0.04
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (19 bp):
ATTTTAACTTGATTGAAAT
Found at i:10893172 original size:19 final size:21
Alignment explanation
Indices: 10893148--10893191 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10893138 TATCATTTTT
*
10893148 AGAAGC-C-CGAAGGCTAAAC
1 AGAAGCTCACGAAAGCTAAAC
*
10893167 AGAAGCTCATGAAAGCTAAAC
1 AGAAGCTCACGAAAGCTAAAC
10893188 AGAA
1 AGAA
10893192 AGTAAACACG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 1 0.05
21 14 0.67
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.09
Consensus pattern (21 bp):
AGAAGCTCACGAAAGCTAAAC
Found at i:10893518 original size:100 final size:101
Alignment explanation
Indices: 10893286--10893524 Score: 320
Period size: 101 Copynumber: 2.4 Consensus size: 101
10893276 AATTCATCCT
* * * * * *
10893286 TTACATTCATATTGTCATAACCCAATTATGTTCTTATCAACAAAATGCCATAGCCCAGCTTTGGT
1 TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCAACAAAATGCCATAGCCCAACTATGGT
* * *
10893351 CTTTCATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTACCATGGTCCAACCATGATC
* * * *
10893387 TTACATTCATAGTGTCC-TAACCCAGTTATGGTCTTATCATCAGAATGTCATAGTCCAACTATGG
1 TTACATTCATAGTG-CCATAACCCAGTTATGGTCTTATCAACAAAATGCCATAGCCCAACTATGG
*
10893451 TCTTACATATAAACATTACCATGGT-CAACCATGATC
65 TCTTACATATAAACACTACCATGGTCCAACCATGATC
*
10893487 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
1 TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATC
10893525 CGTCAATTCA
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
99 2 0.02
100 44 0.36
101 74 0.61
102 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (101 bp):
TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCAACAAAATGCCATAGCCCAACTATGGT
CTTACATATAAACACTACCATGGTCCAACCATGATC
Found at i:10893643 original size:2 final size:2
Alignment explanation
Indices: 10893636--10893682 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
10893626 CAACAATAGA
10893636 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
10893678 AC AC A
1 AC AC A
10893683 TATAATATCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10898328 original size:33 final size:33
Alignment explanation
Indices: 10898273--10898499 Score: 98
Period size: 33 Copynumber: 6.8 Consensus size: 33
10898263 ACATTCGTAT
** *
10898273 TGCCATAACCCAATTATTGTCTTATAATCAGAA
1 TGCCATAACCCAGCTATGGTCTTATAATCAGAA
* * *
10898306 TGCCATAGCCCAGCTATGGTCTTACATAT-AAACA
1 TGCCATAACCCAGCTATGGTCTTATA-ATCAGA-A
*** * * *** *
10898340 CTGCCATGGTCCA-ATCACGGTCTTACGTTCATAA
1 -TGCCATAACCCAGCT-ATGGTCTTATAATCAGAA
* * * *
10898374 TGTCATAACTCAGTTATGGTCTTATCATCAGAA
1 TGCCATAACCCAGCTATGGTCTTATAATCAGAA
* * * *
10898407 TGCCATAACCCAGCTATGGTTTTACATATAAACAA
1 TGCCATAACCCAGCTATGGTCTTATA-AT-CAGAA
*** * * * * *
10898442 TGCCATGGTCCAACCATGGTCTTATATTCATAG
1 TGCCATAACCCAGCTATGGTCTTATAATCAGAA
*
10898475 TGCCATAACCCAGTTATGGTCTTAT
1 TGCCATAACCCAGCTATGGTCTTAT
10898500 CCGTCAATTT
Statistics
Matches: 137, Mismatches: 49, Indels: 16
0.68 0.24 0.08
Matches are distributed among these distances:
33 84 0.61
34 10 0.07
35 43 0.31
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (33 bp):
TGCCATAACCCAGCTATGGTCTTATAATCAGAA
Found at i:10898451 original size:101 final size:101
Alignment explanation
Indices: 10898261--10898500 Score: 345
Period size: 101 Copynumber: 2.4 Consensus size: 101
10898251 AATTCATCCT
* * * * * *
10898261 TTACATTCGTATTGCCATAACCCAATTATTGTCTTATAATCAGAATGCCATAGCCCAGCTATGGT
1 TTACATTCATAATGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAACCCAGCTATGGT
* *
10898326 CTTACATATAAACACTGCCATGGTCCAATCACGGTC
66 CTTACATATAAACAATGCCATGGTCCAACCACGGTC
* * *
10898362 TTACGTTCATAATGTCATAACTCAGTTATGGTCTTATCATCAGAATGCCATAACCCAGCTATGGT
1 TTACATTCATAATGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAACCCAGCTATGGT
* *
10898427 TTTACATATAAACAATGCCATGGTCCAACCATGGTC
66 CTTACATATAAACAATGCCATGGTCCAACCACGGTC
* *
10898463 TTATATTCATAGTGCCATAACCCAGTTATGGTCTTATC
1 TTACATTCATAATGCCATAACCCAGTTATGGTCTTATC
10898501 CGTCAATTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 121 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.33
Consensus pattern (101 bp):
TTACATTCATAATGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAACCCAGCTATGGT
CTTACATATAAACAATGCCATGGTCCAACCACGGTC
Found at i:10900241 original size:24 final size:24
Alignment explanation
Indices: 10900214--10900274 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
10900204 AAATTATCAA
10900214 TTTGAGTTTTAAATATTAACGGGT
1 TTTGAGTTTTAAATATTAACGGGT
* * *
10900238 TTTGGGTTTTAAATTTTAATGGGT
1 TTTGAGTTTTAAATATTAACGGGT
* *
10900262 TTAGACTTTTAAA
1 TTTGAGTTTTAAA
10900275 AATATTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.49
Consensus pattern (24 bp):
TTTGAGTTTTAAATATTAACGGGT
Found at i:10901165 original size:20 final size:22
Alignment explanation
Indices: 10901126--10901166 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10901116 CTTTTTTTAT
10901126 TTAAAAAAATTGACTTTAATTA
1 TTAAAAAAATTGACTTTAATTA
*
10901148 TTAAATAAA-TGA-TTTAATT
1 TTAAAAAAATTGACTTTAATT
10901167 TTCAAGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
TTAAAAAAATTGACTTTAATTA
Found at i:10904078 original size:51 final size:51
Alignment explanation
Indices: 10904023--10904472 Score: 394
Period size: 51 Copynumber: 8.9 Consensus size: 51
10904013 GTGAAAGTGT
* *
10904023 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACATGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * * * * * *
10904074 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
* * *
10904125 TGGTCACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAGTAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * ** * * * * *
10904176 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
* * *
10904227 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * * *
10904278 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA--TAA
* * *
10904329 TAGTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-A
* * * * *
10904379 TGATCACGTGTATAGGACTATGTGAAGGCTATTACGTGAACCG-TAAA-AA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * *
10904428 TTGATCACGTGTGTAGTACTATGTGAATGCTACTACGTGTATCGA
1 -TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
10904473 ATGATAATAG
Statistics
Matches: 313, Mismatches: 75, Indels: 22
0.76 0.18 0.05
Matches are distributed among these distances:
50 84 0.27
51 226 0.72
52 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (51 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
Found at i:10904198 original size:102 final size:102
Alignment explanation
Indices: 10904022--10904472 Score: 613
Period size: 102 Copynumber: 4.4 Consensus size: 102
10904012 AGTGAAAGTG
*
10904022 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACATGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
10904087 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* *
10904124 TTGGTCACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAGTAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
*
10904189 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* *
10904226 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
* *
10904291 AGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* * * * * * *
10904328 TTAGTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACTTGATCACGTGTA
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTG
* * ** * * **
10904391 TAGGACTATGTGAAGGCTATTACGTGAACCGTA-AA-AA
65 TAGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCT
* * * *
10904428 TTGATCACGTGTGTAGTACTATGTGAATGCTACTACGTGTATCGA
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
10904473 ATGATAATAG
Statistics
Matches: 314, Mismatches: 32, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
100 39 0.12
101 41 0.13
102 234 0.75
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
Found at i:10914154 original size:16 final size:16
Alignment explanation
Indices: 10914125--10914178 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
10914115 TTTGGTTCGC
* *
10914125 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
10914141 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
10914157 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
10914173 TGTAAT
1 TGTAAT
10914179 AGCAAATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.02, G:0.35, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:10914262 original size:39 final size:42
Alignment explanation
Indices: 10914157--10914266 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 42
10914147 GGAATAGAGG
*
10914157 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGATTGAA
1 TGTAATGGAATAGAGGTGTAATAGC-AATC-ACTGTAT-ATTGAA
* * **
10914202 TGTAATGGAATAGAGGCGTAATAGCAATC-TTGTAT-TTGGT
1 TGTAATGGAATAGAGGTGTAATAGCAATCACTGTATATTGAA
10914242 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
10914267 TAATGGAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
39 22 0.37
40 5 0.08
42 4 0.07
44 4 0.07
45 24 0.41
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTAATGGAATAGAGGTGTAATAGCAATCACTGTATATTGAA
Found at i:10914493 original size:61 final size:61
Alignment explanation
Indices: 10914427--10914614 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
10914417 TTATAACTAA
10914427 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
10914488 AATATATGATACT-ATAAAATT-TAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
* *
10914547 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGGATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
10914608 AATATAT
1 AATATAT
10914615 GATACTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 32 0.33
60 21 0.22
61 38 0.39
62 3 0.03
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:10914539 original size:120 final size:120
Alignment explanation
Indices: 10914395--10914626 Score: 437
Period size: 120 Copynumber: 1.9 Consensus size: 120
10914385 ATCATATTTA
10914395 AACATAATTATTATTAAATATATTATAACTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAACTAAAATATATAATTTAATAAAATTCTTAATAATCAA
10914460 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATTTAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATTTAAATT
* *
10914515 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAACTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
10914580 TATTCTTATATGGATTTACTCAAATCATAATATATGATACTATAAAA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAA
10914627 GATAATTTGA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAACTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATTTAAATT
Found at i:10914560 original size:14 final size:15
Alignment explanation
Indices: 10914511--10914562 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
10914501 ATAAAATTTA
10914511 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
10914526 TATTAAATATATTAT
1 AATTAAATATATTAT
10914541 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
10914554 AATTTAATA
1 AATTAAATA
10914563 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:10914565 original size:59 final size:59
Alignment explanation
Indices: 10914395--10914575 Score: 181
Period size: 59 Copynumber: 3.0 Consensus size: 59
10914385 ATCATATTTA
* *
10914395 AACATAATTATTATTAAATATATTATAACTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTAAAT
* * * * * * * *
10914454 AATCA-ATATTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAATT-TAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTAAAATATATAAT-TTAATAAAATTCTAAA-T
*
10914515 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTAAAT
10914574 AA
1 AA
10914576 TTAATATTCT
Statistics
Matches: 93, Mismatches: 19, Indels: 20
0.70 0.14 0.15
Matches are distributed among these distances:
58 3 0.03
59 33 0.35
60 24 0.26
61 30 0.32
62 3 0.03
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (59 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTAAAT
Found at i:10914613 original size:59 final size:59
Alignment explanation
Indices: 10914430--10914613 Score: 173
Period size: 59 Copynumber: 3.1 Consensus size: 59
10914420 TAACTAAAAT
*
10914430 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * *
10914489 ATAT-ATGATACTATAAAATT-TAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-TTAA-TATTCTTATATGA-ATT-TACTCAAATCA
10914549 T-
58 TA
*
10914550 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGGATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
10914609 ATATA
1 ATATA
10914614 TGATACTATA
Statistics
Matches: 95, Mismatches: 16, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 7 0.07
59 22 0.23
60 6 0.06
61 17 0.18
62 7 0.07
63 12 0.13
64 6 0.06
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
Found at i:10914744 original size:91 final size:91
Alignment explanation
Indices: 10914649--10914856 Score: 285
Period size: 91 Copynumber: 2.3 Consensus size: 91
10914639 TAATTATAAC
* * * *
10914649 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
* *
10914713 TAATATATAATTTCATAAAATTCTTGA
65 TAATATAGAATTTCATAAAATTCTTAA
* *
10914740 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
10914805 GATATAGAATTTCATAAAATTCTTAA
66 AATATAGAATTTCATAAAATTCTTAA
*
10914831 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
10914857 CTAAAATCAA
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
91 82 0.78
92 22 0.21
93 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATAGAATTTCATAAAATTCTTAA
Found at i:10914772 original size:47 final size:47
Alignment explanation
Indices: 10914716--10914856 Score: 123
Period size: 44 Copynumber: 3.0 Consensus size: 47
10914706 TTAATAATAA
* *
10914716 TATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATT
1 TATACAATTTCATAAAATTCTTAATAATAAATTTTCTTATATGAATT
** * * *
10914763 TATACAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATGA
1 TATACAATTTCATAAAATTCTTAATAATAAAT-T-TTCTTATATGAAT-T
* *
10914807 TATAGAATTTCATAAAATTCTTAATAATAAAATGTTCTTATATGAATT
1 TATACAATTTCATAAAATTCTTAATAAT-AAATTTTCTTATATGAATT
10914855 TA
1 TA
10914857 CTAAAATCAA
Statistics
Matches: 70, Mismatches: 14, Indels: 19
0.68 0.14 0.18
Matches are distributed among these distances:
43 3 0.04
44 24 0.34
45 6 0.09
46 4 0.06
47 22 0.31
48 8 0.11
49 3 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (47 bp):
TATACAATTTCATAAAATTCTTAATAATAAATTTTCTTATATGAATT
Found at i:10914816 original size:44 final size:43
Alignment explanation
Indices: 10914677--10914816 Score: 97
Period size: 44 Copynumber: 3.1 Consensus size: 43
10914667 GAATTTGTAT
* *
10914677 AATTTAAAATAA-TAATTATTACATATAATTTAATAATAATATAT
1 AATTTAAAATAATTAA-TATTAAATATAATTTAATAAT-ATATAC
** * * * *
10914721 AATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTATAC
1 AA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATATAC
*
10914768 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAG
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAC
10914812 AATTT
1 AATTT
10914817 CATAAAATTC
Statistics
Matches: 71, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
43 3 0.04
44 29 0.41
45 7 0.10
46 7 0.10
47 20 0.28
48 5 0.07
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (43 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATATATAC
Found at i:10916280 original size:11 final size:11
Alignment explanation
Indices: 10916266--10916292 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10916256 AAAAATCAAT
10916266 ACAAAAGTTTC
1 ACAAAAGTTTC
10916277 ACAAAAGTTTC
1 ACAAAAGTTTC
10916288 ACAAA
1 ACAAA
10916293 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:10917878 original size:6 final size:6
Alignment explanation
Indices: 10917867--10917910 Score: 52
Period size: 6 Copynumber: 6.7 Consensus size: 6
10917857 AAGAAAAGAT
10917867 ATTTAA ATTTAA ATTTAA ATTTATAA CATTTTAA ATTTAA ATTT
1 ATTTAA ATTTAA ATTTAA A-TT-TAA -A-TTTAA ATTTAA ATTT
10917911 CATTTTGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 22 0.63
7 3 0.09
8 6 0.17
9 4 0.11
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:10919042 original size:14 final size:15
Alignment explanation
Indices: 10919018--10919048 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
10919008 AATTATGTAC
10919018 TAATATCTCCTTTTG
1 TAATATCTCCTTTTG
10919033 TAAT-TCTCCTTTTG
1 TAATATCTCCTTTTG
10919047 TA
1 TA
10919049 GCCTTTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (15 bp):
TAATATCTCCTTTTG
Found at i:10925320 original size:23 final size:22
Alignment explanation
Indices: 10925280--10925322 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
10925270 AAAAGAATAA
*
10925280 ATTCAAGAATAAAAAATTAAAT
1 ATTCAAAAATAAAAAATTAAAT
*
10925302 ATTCAAAACATAAATAATTAA
1 ATTCAAAA-ATAAAAAATTAA
10925323 CAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (22 bp):
ATTCAAAAATAAAAAATTAAAT
Found at i:10928255 original size:42 final size:42
Alignment explanation
Indices: 10928196--10928279 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
10928186 GTTAATGGAG
10928196 ATAGTCATGCTTACCCACTAATTAAAACAACGATACTTAAAT
1 ATAGTCATGCTTACCCACTAATTAAAACAACGATACTTAAAT
10928238 ATAGTCATGCTTACCCACTAATTAAAACAACGATACTTAAAT
1 ATAGTCATGCTTACCCACTAATTAAAACAACGATACTTAAAT
10928280 TGTTTTTATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (42 bp):
ATAGTCATGCTTACCCACTAATTAAAACAACGATACTTAAAT
Found at i:10928515 original size:12 final size:12
Alignment explanation
Indices: 10928498--10928522 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10928488 TTACAAAATG
10928498 ATATATTTTTTA
1 ATATATTTTTTA
10928510 ATATATTTTTTA
1 ATATATTTTTTA
10928522 A
1 A
10928523 GGGTGAAGGA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATATTTTTTA
Found at i:10930947 original size:20 final size:20
Alignment explanation
Indices: 10930922--10930960 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10930912 TAAATACTAC
*
10930922 ATATTAGACCATGGTTCTAA
1 ATATTAGACCATAGTTCTAA
*
10930942 ATATTATACCATAGTTCTA
1 ATATTAGACCATAGTTCTA
10930961 TAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
ATATTAGACCATAGTTCTAA
Found at i:10935025 original size:18 final size:18
Alignment explanation
Indices: 10934970--10935265 Score: 198
Period size: 18 Copynumber: 16.4 Consensus size: 18
10934960 TGTTTCCCAA
10934970 ACATATAAGGGTTCGCAT
1 ACATATAAGGGTTCGCAT
** * **
10934988 ACGCATAAGGGTCCATAT
1 ACATATAAGGGTTCGCAT
*
10935006 ACATATAAGGGTTTGCAT
1 ACATATAAGGGTTCGCAT
*
10935024 ACATATCTAAGGCTTCGCAT
1 ACATA--TAAGGGTTCGCAT
* * **
10935044 ACTTATAAGAGTTTACAT
1 ACATATAAGGGTTCGCAT
*
10935062 ACATATAAGGGTTTGCAT
1 ACATATAAGGGTTCGCAT
*
10935080 ACATATCTAAGGCTTCGCAT
1 ACATA--TAAGGGTTCGCAT
* **
10935100 ACATATAAGAGTTTACAT
1 ACATATAAGGGTTCGCAT
**
10935118 ACATATATAGGGGTTCTTAT
1 ACATATA-A-GGGTTCGCAT
*
10935138 ACATATAAGGGTTCACTTAT
1 ACATATAAGGGTTCGC--AT
* *
10935158 ACATATAGGGGTTCACAT
1 ACATATAAGGGTTCGCAT
*
10935176 ACATATAAGGGTTTC-CAC
1 ACATATAAGGG-TTCGCAT
10935194 ACATATATAGGGATTCGCAT
1 ACATATA-AGGG-TTCGCAT
10935214 AC-----A---TT-GCAT
1 ACATATAAGGGTTCGCAT
*
10935223 ACATATAAGGGTTCGTAT
1 ACATATAAGGGTTCGCAT
* *
10935241 ACATATAAGGGCTCACAT
1 ACATATAAGGGTTCGCAT
10935259 ACATATA
1 ACATATA
10935266 TTGTAATAGC
Statistics
Matches: 216, Mismatches: 42, Indels: 40
0.72 0.14 0.13
Matches are distributed among these distances:
9 6 0.03
10 2 0.01
14 2 0.01
17 2 0.01
18 127 0.59
19 12 0.06
20 65 0.30
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (18 bp):
ACATATAAGGGTTCGCAT
Found at i:10935064 original size:56 final size:56
Alignment explanation
Indices: 10935004--10935217 Score: 254
Period size: 56 Copynumber: 3.8 Consensus size: 56
10934994 AAGGGTCCAT
*
10935004 ATACATATAAGGGTTTGCATACATATCTAAGGCTTCGCATACTTATAAGAGTTTAC
1 ATACATATAAGGGTTTGCATACATATCTAAGGCTTCGCATACATATAAGAGTTTAC
10935060 ATACATATAAGGGTTTGCATACATATCTAAGGCTTCGCATACATATAAGAGTTTAC
1 ATACATATAAGGGTTTGCATACATATCTAAGGCTTCGCATACATATAAGAGTTTAC
* * * * * *
10935116 ATACATATATAGGGGTTCT-TATACATA--TAAGGGTTCACTTATACATATAGGGGTTCAC
1 ATACATATA-A-GGGTT-TGCATACATATCTAAGGCTTCGC--ATACATATAAGAGTTTAC
* * * * *
10935174 ATACATATAAGGGTTTCCACACATATATAGGGATTCGCATACAT
1 ATACATATAAGGGTTTGCATACATATCTAAGGCTTCGCATACAT
10935218 TGCATACATA
Statistics
Matches: 138, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
55 1 0.01
56 90 0.65
57 2 0.01
58 44 0.32
59 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (56 bp):
ATACATATAAGGGTTTGCATACATATCTAAGGCTTCGCATACATATAAGAGTTTAC
Found at i:10935101 original size:38 final size:38
Alignment explanation
Indices: 10934972--10935217 Score: 185
Period size: 38 Copynumber: 6.5 Consensus size: 38
10934962 TTTCCCAAAC
* ** ** *
10934972 ATATAAGGGTTCGCATACGCATAAGGGTCCATATACAT
1 ATATAGGGGTTCGCATACATATAAGGGTTTACATACAT
* * **
10935010 ATA-A-GGGTTTGCATACATATCTAAGGCTTCGCATAC-T
1 ATATAGGGGTTCGCATACATA--TAAGGGTTTACATACAT
* * ** *
10935047 -TATAAGAGTTTACATACATATAAGGGTTTGCATACAT
1 ATATAGGGGTTCGCATACATATAAGGGTTTACATACAT
* * * *
10935084 ATCTAAGGCTTCGCATACATATAAGAGTTTACATACAT
1 ATATAGGGGTTCGCATACATATAAGGGTTTACATACAT
** * * * *
10935122 ATATAGGGGTTCTTATACATATAAGGGTTCACTTATAC
1 ATATAGGGGTTCGCATACATATAAGGGTTTACATACAT
* * *
10935160 ATATAGGGGTTCACATACATATAAGGGTTTCCACACAT
1 ATATAGGGGTTCGCATACATATAAGGGTTTACATACAT
*
10935198 ATATAGGGATTCGCATACAT
1 ATATAGGGGTTCGCATACAT
10935218 TGCATACATA
Statistics
Matches: 164, Mismatches: 38, Indels: 12
0.77 0.18 0.06
Matches are distributed among these distances:
36 27 0.16
37 4 0.02
38 133 0.81
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (38 bp):
ATATAGGGGTTCGCATACATATAAGGGTTTACATACAT
Found at i:10935139 original size:20 final size:20
Alignment explanation
Indices: 10935059--10935217 Score: 95
Period size: 20 Copynumber: 8.3 Consensus size: 20
10935049 TAAGAGTTTA
10935059 CATACATATA-A-GGGTT-T
1 CATACATATATAGGGGTTCT
* * * *
10935076 GCATACATATCTAAGGCTTCG
1 -CATACATATATAGGGGTTCT
*
10935097 CATACATATA-A-GAGTT-T
1 CATACATATATAGGGGTTCT
10935114 ACATACATATATAGGGGTTCT
1 -CATACATATATAGGGGTTCT
* *
10935135 TATACATATA-A-GGGTTCA
1 CATACATATATAGGGGTTCT
* * * *
10935153 CTTATACATATAGGGGTTCA
1 CATACATATATAGGGGTTCT
*
10935173 CATACATATA-AGGGTTTC-
1 CATACATATATAGGGGTTCT
* * *
10935191 CACACATATATAGGGATTCG
1 CATACATATATAGGGGTTCT
10935211 CATACAT
1 CATACAT
10935218 TGCATACATA
Statistics
Matches: 109, Mismatches: 21, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
18 43 0.39
19 19 0.17
20 46 0.42
21 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (20 bp):
CATACATATATAGGGGTTCT
Found at i:10946791 original size:25 final size:25
Alignment explanation
Indices: 10946763--10946821 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
10946753 AATAGGATGG
* *
10946763 AACAGAGCAGAGCAATACT-GAACAC
1 AACAGAGCAGAAC-ATAATAGAACAC
*
10946788 AACAGAGCAGAACATAATAGAACAG
1 AACAGAGCAGAACATAATAGAACAC
10946813 AACAGAGCA
1 AACAGAGCA
10946822 TGTATGCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.53, C:0.20, G:0.20, T:0.07
Consensus pattern (25 bp):
AACAGAGCAGAACATAATAGAACAC
Found at i:10947776 original size:29 final size:29
Alignment explanation
Indices: 10947744--10947802 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
10947734 GCAGTGTGCT
* *
10947744 CGCCCGTATGTCCCACGCGGCCTGACACA
1 CGCCCGTATGTCCCACACAGCCTGACACA
* * *
10947773 CGCCTGTGTGTCCCACATAGCCTGACACA
1 CGCCCGTATGTCCCACACAGCCTGACACA
10947802 C
1 C
10947803 ACCTGTCTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.19, C:0.42, G:0.22, T:0.17
Consensus pattern (29 bp):
CGCCCGTATGTCCCACACAGCCTGACACA
Found at i:10950368 original size:34 final size:34
Alignment explanation
Indices: 10950304--10950370 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
10950294 CAGAGATTTC
* *
10950304 AACAGAGGTAGTACAACAGAACAAAGCAAAACAG
1 AACAGAGGTAGAACAACACAACAAAGCAAAACAG
10950338 AACAGA-GTAGAACAACACAATTCAAA-CAAAACA
1 AACAGAGGTAGAACAACACAA--CAAAGCAAAACA
10950371 AAATCGAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 12 0.41
34 13 0.45
35 4 0.14
ACGTcount: A:0.58, C:0.19, G:0.15, T:0.07
Consensus pattern (34 bp):
AACAGAGGTAGAACAACACAACAAAGCAAAACAG
Found at i:10950464 original size:35 final size:35
Alignment explanation
Indices: 10950404--10950475 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
10950394 TAGGATGGAA
*
10950404 CAGAGTAGAGCAATACTGAACAGAACAGAACAAAG
1 CAGAGTAGAGCAATACTGAACAGAACAAAACAAAG
* *
10950439 CAGAGTAGAGCAGA-ACAT-AATAGAACAAAACAGAG
1 CAGAGTAGAGCA-ATAC-TGAACAGAACAAAACAAAG
10950474 CA
1 CA
10950476 TGTATGTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 30 0.94
36 2 0.06
ACGTcount: A:0.53, C:0.17, G:0.22, T:0.08
Consensus pattern (35 bp):
CAGAGTAGAGCAATACTGAACAGAACAAAACAAAG
Found at i:10951424 original size:28 final size:30
Alignment explanation
Indices: 10951360--10951424 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 30
10951350 AGAGAACTGG
10951360 CCTGTGTGGCTCCACACGGTCTAGCACACA
1 CCTGTGTGGCTCCACACGGTCTAGCACACA
* *
10951390 CCCGTGTGTC-CCACACGG-CT-GACACACA
1 CCTGTGTGGCTCCACACGGTCTAG-CACACA
10951418 CCTGTGT
1 CCTGTGT
10951425 CACTTGTCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 1 0.03
28 14 0.45
29 8 0.26
30 8 0.26
ACGTcount: A:0.18, C:0.38, G:0.23, T:0.20
Consensus pattern (30 bp):
CCTGTGTGGCTCCACACGGTCTAGCACACA
Found at i:10954006 original size:25 final size:25
Alignment explanation
Indices: 10953950--10954008 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
10953940 CAGATCGCAT
* *
10953950 GAGCTTATCGTTATTCAGCTAGAAG
1 GAGCTTACCATTATTCAGCTAGAAG
* * * *
10953975 AAACTTACCATTATTTAGCTCGAAG
1 GAGCTTACCATTATTCAGCTAGAAG
10954000 GAGCTTACC
1 GAGCTTACC
10954009 GTTTACAACT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (25 bp):
GAGCTTACCATTATTCAGCTAGAAG
Found at i:10957532 original size:21 final size:20
Alignment explanation
Indices: 10957494--10957533 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
10957484 AATTTTAAAA
*
10957494 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTT
10957514 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
10957534 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:10960328 original size:16 final size:16
Alignment explanation
Indices: 10960307--10960337 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10960297 ATATTACTAT
*
10960307 TATTTAATTTTAAAAA
1 TATTTAATATTAAAAA
10960323 TATTTAATATTAAAA
1 TATTTAATATTAAAA
10960338 TAATAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:10960554 original size:14 final size:14
Alignment explanation
Indices: 10960535--10960568 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10960525 TGATAAATGT
* *
10960535 TTTTAATATGTATA
1 TTTTAAAATATATA
10960549 TTTTAAAATATATA
1 TTTTAAAATATATA
10960563 TTTTAA
1 TTTTAA
10960569 GTTTAACAAT
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:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTTTAAAATATATA
Found at i:10962968 original size:3 final size:3
Alignment explanation
Indices: 10962960--10963018 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
10962950 CCCAATCCAC
10962960 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
10963008 TAT TAT TAT TA
1 TAT TAT TAT TA
10963019 AAATTGGCAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10963245 original size:22 final size:24
Alignment explanation
Indices: 10963220--10963265 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
10963210 TTTTCTAATT
10963220 AAATCAATTATAA-AT-ATTAAAA
1 AAATCAATTATAACATAATTAAAA
*
10963242 AAATCAATTTTAACATAATTAAAA
1 AAATCAATTATAACATAATTAAAA
10963266 GTTATGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 2 0.10
24 7 0.33
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATCAATTATAACATAATTAAAA
Found at i:10964359 original size:49 final size:49
Alignment explanation
Indices: 10964287--10964407 Score: 152
Period size: 49 Copynumber: 2.5 Consensus size: 49
10964277 CACGGCCATG
* * **
10964287 TGAAATCATGCAGGTCGTGTGGGTAGGCTGTGTGGGGCACACGACCGTA
1 TGAAATCATGCAGGCCATGTGGGTAGGCCATGTGGGGCACACGACCGTA
* * * * *
10964336 TGAAATCATGCAGGCCATATGGGTAGGCCATGTGGGGCACATGGCTGTG
1 TGAAATCATGCAGGCCATGTGGGTAGGCCATGTGGGGCACACGACCGTA
*
10964385 TGAAATCATGCAGACCATGTGGG
1 TGAAATCATGCAGGCCATGTGGG
10964408 CCTTTAGGGT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 61 1.00
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.22
Consensus pattern (49 bp):
TGAAATCATGCAGGCCATGTGGGTAGGCCATGTGGGGCACACGACCGTA
Found at i:10966205 original size:48 final size:48
Alignment explanation
Indices: 10966133--10966339 Score: 218
Period size: 48 Copynumber: 4.3 Consensus size: 48
10966123 CTACTATGCG
* * *
10966133 CACCGATATTCTGTTATGACACAAGGGTGGCACGGACTGTGTGCGGGC
1 CACCGATAATCTGTAATGACACAAGGGTGGCACGGACTGTGTGCAGGC
* * *
10966181 CACCGATATTCTGTAATGATACAAGGGTGGCACAGACTGTGTGCAGGC
1 CACCGATAATCTGTAATGACACAAGGGTGGCACGGACTGTGTGCAGGC
* * * * *
10966229 CACCAATAACCTGTTAA-GATATAAGGGTGGCACGGACTATGTGCAGGC
1 CACCGATAATCTG-TAATGACACAAGGGTGGCACGGACTGTGTGCAGGC
* * * * * * *
10966277 CACCGAGAATCTATTATCACACAAAGGTGGTATGGACTGTGTGCAGGC
1 CACCGATAATCTGTAATGACACAAGGGTGGCACGGACTGTGTGCAGGC
*
10966325 CACCGAGAAATCTGT
1 CACCGA-TAATCTGT
10966340 TATTTGAACA
Statistics
Matches: 132, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
47 2 0.02
48 121 0.92
49 9 0.07
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (48 bp):
CACCGATAATCTGTAATGACACAAGGGTGGCACGGACTGTGTGCAGGC
Found at i:10966315 original size:96 final size:96
Alignment explanation
Indices: 10966155--10966328 Score: 240
Period size: 96 Copynumber: 1.8 Consensus size: 96
10966145 GTTATGACAC
* * * * * * * *
10966155 AAGGGTGGCACGGACTGTGTGCGGGCCACCGATATTCTGTAATGATACAAGGGTGGCACAGACTG
1 AAGGGTGGCACGGACTATGTGCAGGCCACCGAGAATCTATAATCACACAAAGGTGGCACAGACTG
10966220 TGTGCAGGCCACCAATAACCTGTTAAGATAT
66 TGTGCAGGCCACCAATAACCTGTTAAGATAT
* * **
10966251 AAGGGTGGCACGGACTATGTGCAGGCCACCGAGAATCTATTATCACACAAAGGTGGTATGGACTG
1 AAGGGTGGCACGGACTATGTGCAGGCCACCGAGAATCTATAATCACACAAAGGTGGCACAGACTG
10966316 TGTGCAGGCCACC
66 TGTGCAGGCCACC
10966329 GAGAAATCTG
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 66 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (96 bp):
AAGGGTGGCACGGACTATGTGCAGGCCACCGAGAATCTATAATCACACAAAGGTGGCACAGACTG
TGTGCAGGCCACCAATAACCTGTTAAGATAT
Found at i:10971962 original size:48 final size:48
Alignment explanation
Indices: 10971906--10972110 Score: 223
Period size: 48 Copynumber: 4.2 Consensus size: 48
10971896 CTATGCACAT
*
10971906 CGATATTCTGTTATGACACAAGAGTGGCACGGACTGTGTGCAGGCCAC
1 CGATAATCTGTTATGACACAAGAGTGGCACGGACTGTGTGCAGGCCAC
* * * *
10971954 CGATATTCTGTTATGATACAAGGGTGGCACGGACTGTGTGTAGGCCAC
1 CGATAATCTGTTATGACACAAGAGTGGCACGGACTGTGTGCAGGCCAC
* * * * * * * *
10972002 CAATAACCTGTTAAGATATAAGGGTGGCACGGACTATGTGTAGGCCAC
1 CGATAATCTGTTATGACACAAGAGTGGCACGGACTGTGTGCAGGCCAC
* * * *
10972050 CGAGAATCTGTTATCACACAA-AGGTGGTACGGACTGTGTGCAGGCTAC
1 CGATAATCTGTTATGACACAAGA-GTGGCACGGACTGTGTGCAGGCCAC
*
10972098 CGAGAAATCTGTT
1 CGA-TAATCTGTT
10972111 TTTATTCCGA
Statistics
Matches: 133, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
48 125 0.94
49 8 0.06
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
CGATAATCTGTTATGACACAAGAGTGGCACGGACTGTGTGCAGGCCAC
Found at i:10979294 original size:42 final size:43
Alignment explanation
Indices: 10979217--10979303 Score: 158
Period size: 42 Copynumber: 2.0 Consensus size: 43
10979207 CAGATAAAAA
10979217 ATCCTTACAAAATTTGGTTTTTTTTATCTAAAGGATTTAATTT
1 ATCCTTACAAAATTTGGTTTTTTTTATCTAAAGGATTTAATTT
*
10979260 ATCCTTACAGAATTTGG-TTTTTTTATCTAAAGGATTTAATTT
1 ATCCTTACAAAATTTGGTTTTTTTTATCTAAAGGATTTAATTT
10979302 AT
1 AT
10979304 TGATTTATCT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (43 bp):
ATCCTTACAAAATTTGGTTTTTTTTATCTAAAGGATTTAATTT
Found at i:10981240 original size:16 final size:16
Alignment explanation
Indices: 10981219--10981251 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10981209 AAGTAATGTT
10981219 GCAGTGAGGTGTCAAG
1 GCAGTGAGGTGTCAAG
10981235 GCAGTGAGGTGTCAAG
1 GCAGTGAGGTGTCAAG
10981251 G
1 G
10981252 TAATGTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.45, T:0.18
Consensus pattern (16 bp):
GCAGTGAGGTGTCAAG
Found at i:10989494 original size:21 final size:22
Alignment explanation
Indices: 10989469--10989529 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
10989459 TAGATTTTTT
*
10989469 TAAAATTTTAAAGGAATTTTGA
1 TAAAATTTTAAAAGAATTTTGA
*
10989491 -AAAATTATAAAAGAATTTTGA
1 TAAAATTTTAAAAGAATTTTGA
*
10989512 TATAATTTTCAAAA-AATT
1 TAAAATTTT-AAAAGAATT
10989530 CAAAAAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 19 0.58
22 10 0.30
23 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (22 bp):
TAAAATTTTAAAAGAATTTTGA
Done.