Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold144
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: 3311329
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
File 17 of 21
Found at i:2562805 original size:14 final size:16
Alignment explanation
Indices: 2562780--2562820 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2562770 AATCAAAAGA
2562780 AAAAGCACAAAAAATG-
1 AAAAGCA-AAAAAATGC
*
2562796 AAAAG-AAAAAAGTGC
1 AAAAGCAAAAAAATGC
2562811 AAAAGCAAAA
1 AAAAGCAAAA
2562821 TAAAAAGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 7 0.32
15 6 0.27
16 9 0.41
ACGTcount: A:0.71, C:0.10, G:0.15, T:0.05
Consensus pattern (16 bp):
AAAAGCAAAAAAATGC
Found at i:2563892 original size:32 final size:33
Alignment explanation
Indices: 2563831--2563894 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
2563821 TACAAGCCAA
*
2563831 TGTATCAATACATTTTGGGATGTATCGATACAT
1 TGTATCAATACATATTGGGATGTATCGATACAT
*
2563864 TGTATCAATACATATTGTG-TGTATCGATACA
1 TGTATCAATACATATTGGGATGTATCGATACA
2563895 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTATCAATACATATTGGGATGTATCGATACAT
Found at i:2563994 original size:13 final size:13
Alignment explanation
Indices: 2563976--2564000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2563966 ACATTTGGTC
2563976 ATGTATCGATACA
1 ATGTATCGATACA
2563989 ATGTATCGATAC
1 ATGTATCGATAC
2564001 TGTGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2564619 original size:16 final size:16
Alignment explanation
Indices: 2564595--2564626 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2564585 CCTTAATAAA
*
2564595 GCAATTTAACAATTTC
1 GCAAATTAACAATTTC
2564611 GCAAATTAACAATTTC
1 GCAAATTAACAATTTC
2564627 TTTCTCCCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (16 bp):
GCAAATTAACAATTTC
Found at i:2566481 original size:13 final size:13
Alignment explanation
Indices: 2566463--2566487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2566453 ATAAACCCTT
2566463 TGTATCGATACAA
1 TGTATCGATACAA
2566476 TGTATCGATACA
1 TGTATCGATACA
2566488 TTTGAACATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2566656 original size:8 final size:8
Alignment explanation
Indices: 2566638--2566668 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
2566628 TTTTCAACAT
2566638 CAAATATCA
1 CAAA-ATCA
2566647 CAAAATCA
1 CAAAATCA
2566655 CAAAATCA
1 CAAAATCA
2566663 CAAAAT
1 CAAAAT
2566669 TTAATCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.61, C:0.23, G:0.00, T:0.16
Consensus pattern (8 bp):
CAAAATCA
Found at i:2572638 original size:13 final size:13
Alignment explanation
Indices: 2572620--2572645 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2572610 CATTTTGGGA
2572620 TGTATCGATACAT
1 TGTATCGATACAT
2572633 TGTATCGATACAT
1 TGTATCGATACAT
2572646 ATTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2572642 original size:33 final size:32
Alignment explanation
Indices: 2572600--2572663 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
2572590 TACAAGCCAA
*
2572600 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATATTGGG-TGTATCGATACAT
*
2572633 TGTATCGATACATATTGTGTGTATCGATACA
1 TGTATCGATACATATTGGGTGTATCGATACA
2572664 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTGGGTGTATCGATACAT
Found at i:2572763 original size:13 final size:13
Alignment explanation
Indices: 2572745--2572769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2572735 ACATTTGGTC
2572745 ATGTATCGATACA
1 ATGTATCGATACA
2572758 ATGTATCGATAC
1 ATGTATCGATAC
2572770 TGTGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2574168 original size:28 final size:28
Alignment explanation
Indices: 2574133--2576531 Score: 3304
Period size: 28 Copynumber: 85.2 Consensus size: 28
2574123 CTTTTTAAGT
2574133 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2574161 CCAAAAGTCAGTGGCACCCATTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2574189 CCACAAGTTAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2574218 TCACAAGTCAGTGGCACCTTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2574246 CCACAAGTCAGTGGCACTCTTTTCAAAAC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2574275 CCACAAGTCAATGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
2574303 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2574331 CCATAAGTCAGTGGCATCCC--TCAAAGC
1 CCACAAGTCAGTGGCA-CCCTTTCAAAGC
*
2574358 CCACAAGTCAGTGGCAACCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2574386 CCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2574415 CCACAAGTCAGTGGCA-TCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2574442 CCATAAGTTAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2574470 CCACAAATCAGTGGTACTCCTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
2574499 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2574527 CCATAAGTCAGTGGCATCC-TTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2574554 CCACAAGTTAGTGGCA-CTTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
2574581 CCACAAGTCAGTGGCA-CCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2574608 CCACAAGTCAGTGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2574637 CCACAAGTTAGTGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2574666 CCACAAGTCAGTGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2574695 CCACAAGTCAGTGGCAACCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2574723 CCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2574752 CCACAAGTCAGTGGCA-TCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2574779 CCATAAGTTAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2574807 CCACAAGTCAGTGGTACGCCTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
2574836 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2574864 CCATAAGTCAGTGGCATCC-TTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2574891 CCACAAGTTAGTGGCA-CTTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
2574918 CCACAAGTCAGTGGCA-CCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
2574945 CCATAAGTTAGTGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2574974 CCACAAGTCAGTGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
2575003 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2575031 CCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
* * *
2575060 TCACAAGTCAGTGGCATCCTTTAAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
2575088 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
2575116 CCATAAGTCAGTGACACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2575145 CCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2575174 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2575202 CCATAAGTTAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2575230 CCATAAGTCAGTGGCATCC-TTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2575257 CCACAAGTCAGTGGCAACCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2575285 CCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2575314 CCACAAGTCAGTGGCA-TCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2575341 CCATAAGTTAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2575369 CCACAAGTCAGTGGTACTCCTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
2575398 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2575426 CCATAAGTCAGTGGCATCC-TTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2575453 CCACAAGTTAGTGGCA-CTTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2575480 CTACAAGTCAGTGGCA-CCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2575507 CCACAAGTCAGTGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2575536 CCACAAGTTAGTGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2575565 CCACAAGTCAATGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
2575594 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2575622 CCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
* * *
2575651 TCACAAGTCAGTGGCATCCTTTAAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
2575679 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
2575707 CCATAAGTCAGTGACACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2575736 CCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2575765 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2575793 CCACAAGTTAGTGGCACCCTTTCAAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2575821 CCACAAGTCAGTGACACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2575849 CCATAAGTCAGTGGCACCTTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2575877 CTACAAGTTAGTGGCACTCCTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2575906 CCATAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * ***
2575934 CTACAAGTTAGTGGCATTATTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2575962 CCACAAGTCAGTGGCACCTTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
2575990 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2576018 GCACAAGTTAGTGGCACTCCTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2576047 CCACAAGTCAATGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2576075 CCACAAGTTAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2576104 TCC-CAAGTCAGTGGCACCTTTTCAAAGG
1 -CCACAAGTCAGTGGCACCCTTTCAAAGC
2576132 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
2576160 CCACAAGTTAGTGGCACTCTTTTCAAAGT
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2576189 CCACAAGTCAGTGGCATCC-TTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2576216 CCACGAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2576244 CCACAAGTCAGTGGCACCCTTTCAATGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
2576272 CCACAAGTTAGTGGCACCTTTTCAAATC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2576300 CCACAAGTCAGTGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2576329 CC-CAAGTTAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2576356 CCACAAGTTAGTGGCACTCTTTGCAAAGC
1 CCACAAGTCAGTGGCACCCTTT-CAAAGC
* * *
2576385 CCACAAGTTATTGGCACCTTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
2576413 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2576441 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
*
2576469 CCACAAGTTAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACCCTTTCAAAGC
** *
2576497 CCACAAGTCAGTGGCACTTTTTTCAAGGC
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC
2576526 CCACAA
1 CCACAA
2576532 ACTAGTGGTA
Statistics
Matches: 2126, Mismatches: 206, Indels: 77
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.00
27 364 0.17
28 1026 0.48
29 729 0.34
30 2 0.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (28 bp):
CCACAAGTCAGTGGCACCCTTTCAAAGC
Found at i:2574228 original size:57 final size:57
Alignment explanation
Indices: 2574133--2576531 Score: 3326
Period size: 57 Copynumber: 42.6 Consensus size: 57
2574123 CTTTTTAAGT
* *
2574133 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCAAAAGTCAGTGGCACCCATTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
2574189 CCACAAGTTAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCACCTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
2574246 CCACAAGTCAGTGGCACTCTTTTCAAAACCCACAAGTCAATGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
2574303 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCATAAGTCAGTGGCATCCC--TCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGC
* *
2574358 CCACAAGTCAGTGGCA-ACCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2574415 CCACAAGTCAGTGGCA-T-CTTTCAAAGCCCATAAGTTAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2574470 CCACAAATCAGTGGTACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
2574527 CCATAAGTCAGTGGCA-TCC-TTCAAAGCCCACAAGTTAGTGGCA-CTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
2574581 CCACAAGTCAGTGGCA--CCTTTCAAAGCCCACAAGTCAGTGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* * *
2574637 CCACAAGTTAGTGGCACTACTTTCAAAGCCCACAAGTCAGTGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2574695 CCACAAGTCAGTGGCA-ACCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2574752 CCACAAGTCAGTGGCA-T-CTTTCAAAGCCCATAAGTTAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2574807 CCACAAGTCAGTGGTACGCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
2574864 CCATAAGTCAGTGGCA-TCC-TTCAAAGCCCACAAGTTAGTGGCA-CTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
2574918 CCACAAGTCAGTGGCA--CCTTTCAAAGCCCATAAGTTAGTGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2574974 CCACAAGTCAGTGGCACTACTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
2575031 CCACAAGTCAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCATCCTTTAAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
2575088 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCATAAGTCAGTGACACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2575145 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
2575202 CCATAAGTTAGTGGCAC-CCTTTCAAAGCCCATAAGTCAGTGGCATCC-TTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2575257 CCACAAGTCAGTGGCA-ACCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2575314 CCACAAGTCAGTGGCA-T-CTTTCAAAGCCCATAAGTTAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
2575369 CCACAAGTCAGTGGTACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
2575426 CCATAAGTCAGTGGCA-TCC-TTCAAAGCCCACAAGTTAGTGGCA-CTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2575480 CTACAAGTCAGTGGCA--CCTTTCAAAGCCCACAAGTCAGTGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* * * *
2575536 CCACAAGTTAGTGGCACTACTTTCAAAGCCCACAAGTCAATGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
*
2575594 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2575651 TCACAAGTCAGTGGCA-TCCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
2575707 CCATAAGTCAGTGACACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2575765 CCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGT
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
2575821 CCACAAGTCAGTGACAC-CCTTTCAAAGCCCATAAGTCAGTGGCACCTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
2575877 CTACAAGTTAGTGGCACTCCTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * ** *
2575934 CTACAAGTTAGTGGCA-TTATTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2575990 CCACAAGTCAGTGGCAC-CCTTTCAAAGCGCACAAGTTAGTGGCACTCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* * *
2576047 CCACAAGTCAATGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
2576104 TCC-CAAGTCAGTGGCAC-CTTTTCAAAGGCCACAAGTCAGTGGCACCCTTTCAAAGC
1 -CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
2576160 CCACAAGTTAGTGGCACTCTTTTCAAAGTCCACAAGTCAGTGGCATCC-TTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
2576216 CCACGAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAATGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * *
2576272 CCACAAGTTAGTGGCAC-CTTTTCAAATCCCACAAGTCAGTGGCACTACTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* * *
2576329 CC-CAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTGCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTT-CAAAGC
* * *
2576385 CCACAAGTTATTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
2576441 CCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
** *
2576497 CCACAAGTCAGTGGCACTTTTTTCAAGGCCCACAA
1 CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAA
2576532 ACTAGTGGTA
Statistics
Matches: 2106, Mismatches: 186, Indels: 101
0.88 0.08 0.04
Matches are distributed among these distances:
53 6 0.00
54 144 0.07
55 275 0.13
56 629 0.30
57 869 0.41
58 183 0.09
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (57 bp):
CCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
Found at i:2574231 original size:85 final size:85
Alignment explanation
Indices: 2574133--2576531 Score: 3336
Period size: 85 Copynumber: 28.4 Consensus size: 85
2574123 CTTTTTAAGT
* * *
2574133 CCACAAGTCAGTGGCACCCTTTCAAAGCCCAAAAGTCAGTGGCACCCATTCAAAGCCCACAAGTT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
*
2574198 AGTGGCACTCTTTTCAAAGC
66 AGTGGCACTCCTTTCAAAGC
* * * *
2574218 TCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAACCCACAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGT
*
2574283 CAATGGCAC-CCTTTCAAAGC
65 CAGTGGCACTCCTTTCAAAGC
*
2574303 CCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCATCCC--TCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGT
*
2574366 CAGTGGCA-ACCTTTCAAAGC
65 CAGTGGCACTCCTTTCAAAGC
* * *
2574386 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTCAAAGCCCATAAGT
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
*
2574450 TAGTGGCAC-CCTTTCAAAGC
65 CAGTGGCACTCCTTTCAAAGC
* * *
2574470 CCACAAATCAGTGGTACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGT
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
2574535 CAGTGGCA-TCC-TTCAAAGC
65 CAGTGGCACTCCTTTCAAAGC
* *
2574554 CCACAAGTTAGTGGCA-CTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
*
2574617 AGTGGCACTACTTTCAAAGC
66 AGTGGCACTCCTTTCAAAGC
* * *
2574637 CCACAAGTTAGTGGCACTACTTTCAAAGCCCACAAGTCAGTGGCACTACTTTCAAAGCCCACAAG
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAG
*
2574702 TCAGTGGCA-ACCTTTCAAAGC
64 TCAGTGGCACTCCTTTCAAAGC
* * *
2574723 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTCAAAGCCCATAAGT
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
*
2574787 TAGTGGCAC-CCTTTCAAAGC
65 CAGTGGCACTCCTTTCAAAGC
* *
2574807 CCACAAGTCAGTGGTACGCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGT
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
2574872 CAGTGGCA-TCC-TTCAAAGC
65 CAGTGGCACTCCTTTCAAAGC
* * * *
2574891 CCACAAGTTAGTGGCA-CTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCATAAGTT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
*
2574954 AGTGGCACTACTTTCAAAGC
66 AGTGGCACTCCTTTCAAAGC
*
2574974 CCACAAGTCAGTGGCACTACTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
*
2575039 CAGTGGCACTCTTTTCAAAGC
65 CAGTGGCACTCCTTTCAAAGC
* * * *
2575060 TCACAAGTCAGTGGCATCCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
* *
2575125 AGTGACACTCTTTTCAAAGC
66 AGTGGCACTCCTTTCAAAGC
* * *
2575145 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGT
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
*
2575210 TAGTGGCAC-CCTTTCAAAGC
65 CAGTGGCACTCCTTTCAAAGC
* * *
2575230 CCATAAGTCAGTGGCATCC-TTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
*
2575294 AGTGGCACTCTTTTCAAAGC
66 AGTGGCACTCCTTTCAAAGC
* * *
2575314 CCACAAGTCAGTGGCA-TCTTTCAAAGCCCATAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
*
2575378 AGTGGTACTCCTTTCAAAGC
66 AGTGGCACTCCTTTCAAAGC
* * *
2575398 CCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCATCC-TTCAAAGCCCACAAGTT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
2575462 AGTGGCACT--TTTCAAAGC
66 AGTGGCACTCCTTTCAAAGC
* *
2575480 CTACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCACTACTTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGT
* *
2575544 TAGTGGCACTACTTTCAAAGC
65 CAGTGGCACTCCTTTCAAAGC
* *
2575565 CCACAAGTCAATGGCACTACTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
*
2575630 CAGTGGCACTCTTTTCAAAGC
65 CAGTGGCACTCCTTTCAAAGC
* * * *
2575651 TCACAAGTCAGTGGCATCCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
* *
2575716 AGTGACACTCTTTTCAAAGC
66 AGTGGCACTCCTTTCAAAGC
* *
2575736 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
* *
2575801 TAGTGGCAC-CCTTTCAAAGT
65 CAGTGGCACTCCTTTCAAAGC
* * * * *
2575821 CCACAAGTCAGTGACACCCTTTCAAAGCCCATAAGTCAGTGGCACCTTTTCAAAGCCTACAAGTT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
2575886 AGTGGCACTCCTTTCAAAGC
66 AGTGGCACTCCTTTCAAAGC
* * * ***
2575906 CCATAAGTCAGTGGCACCCTTTCAAAGCCTACAAGTTAGTGGCATTATTTCAAAGCCCACAAGTC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
*
2575971 AGTGGCAC-CTTTTCAAAGC
66 AGTGGCACTCCTTTCAAAGC
* *
2575990 CCACAAGTCAGTGGCACCCTTTCAAAGCGCACAAGTTAGTGGCACTCCTTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGT
*
2576055 CAATGGCAC-CCTTTCAAAGC
65 CAGTGGCACTCCTTTCAAAGC
* * * *
2576075 CCACAAGTTAGTGGCACTCTTTTCAAAGCTCC-CAAGTCAGTGGCACCTTTTCAAAGGCCACAAG
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGC-CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAG
2576139 TCAGTGGCAC-CCTTTCAAAGC
64 TCAGTGGCACTCCTTTCAAAGC
* * * * *
2576160 CCACAAGTTAGTGGCACTCTTTTCAAAGTCCACAAGTCAGTGGCATCC-TTCAAAGCCCACGAGT
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
2576224 CAGTGGCA-TCCTTTCAAAGC
65 CAGTGGCACTCCTTTCAAAGC
* * * *
2576244 CCACAAGTCAGTGGCACCCTTTCAATGCCCACAAGTTAGTGGCACCTTTTCAAATCCCACAAGTC
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
*
2576309 AGTGGCACTACTTTCAAAGC
66 AGTGGCACTCCTTTCAAAGC
* * * *
2576329 CC-CAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTGCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGT
* * *
2576393 TATTGGCAC-CTTTTCAAAGC
65 CAGTGGCACTCCTTTCAAAGC
* *
2576413 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTT
1 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
2576478 AGTGGCAC-CCTTTCAAAGC
66 AGTGGCACTCCTTTCAAAGC
** *
2576497 CCACAAGTCAGTGGCACTTTTTTCAAGGCCCACAA
1 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAA
2576532 ACTAGTGGTA
Statistics
Matches: 2081, Mismatches: 188, Indels: 90
0.88 0.08 0.04
Matches are distributed among these distances:
81 78 0.04
82 82 0.04
83 197 0.09
84 622 0.30
85 747 0.36
86 301 0.14
87 54 0.03
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (85 bp):
CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
AGTGGCACTCCTTTCAAAGC
Found at i:2577160 original size:20 final size:20
Alignment explanation
Indices: 2577135--2577209 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
2577125 TTTTACCCAG
*
2577135 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * *
2577155 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
2577175 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
2577195 ATGTATCGATACATT
1 ATGTATCGATACATT
2577210 CTGTCTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2577256 original size:29 final size:30
Alignment explanation
Indices: 2577195--2577268 Score: 114
Period size: 29 Copynumber: 2.5 Consensus size: 30
2577185 ACATTCTTCA
* *
2577195 ATGTATCGATACATTCTGTCTTTTTACCTAG
1 ATGTATCGATACA-TATGTCTTTTTACCCAG
2577226 ATGTATCGATACA-ATGTCTTTTTACCCAG
1 ATGTATCGATACATATGTCTTTTTACCCAG
2577255 ATGTATCGATACAT
1 ATGTATCGATACAT
2577269 CTAATTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
29 27 0.68
31 13 0.32
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (30 bp):
ATGTATCGATACATATGTCTTTTTACCCAG
Found at i:2580476 original size:33 final size:36
Alignment explanation
Indices: 2580439--2580528 Score: 116
Period size: 33 Copynumber: 2.6 Consensus size: 36
2580429 TAATTAAATT
*
2580439 TTATATTTATGTTAAATAATAA-AATA-TA-AAAAA
1 TTATATTTATGTTAAATAATAATAAAATTAGAAAAA
*
2580472 TTATATTTATGTTAAATAATAATTAAAATTAGTAAAA
1 TTATATTTATGTTAAATAATAA-TAAAATTAGAAAAA
*
2580509 TTATATTTATATTAAA-AATA
1 TTATATTTATGTTAAATAATA
2580529 TATATTTATA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
33 22 0.44
35 3 0.06
36 6 0.12
37 19 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (36 bp):
TTATATTTATGTTAAATAATAATAAAATTAGAAAAA
Found at i:2580534 original size:19 final size:18
Alignment explanation
Indices: 2580462--2580540 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
2580452 AAATAATAAA
*
2580462 ATATAAAAAATTATATTT
1 ATATTAAAAATTATATTT
* *
2580480 ATGTTAAATAA-TA-ATTA
1 ATATTAAA-AATTATATTT
*
2580497 AAATTAGTAAAATTATATTT
1 ATATTA--AAAATTATATTT
2580517 ATATTAAAAATATATATTT
1 ATATTAAAAAT-TATATTT
2580536 ATATT
1 ATATT
2580541 GTTATAATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
17 7 0.15
18 15 0.31
19 18 0.38
20 8 0.17
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
ATATTAAAAATTATATTT
Found at i:2581544 original size:78 final size:78
Alignment explanation
Indices: 2581356--2581561 Score: 197
Period size: 78 Copynumber: 2.6 Consensus size: 78
2581346 AGGTATTATT
*
2581356 ACCTAAATGACTCTAATGAATATGTATCGACATGAAAGTTC-TCACATGACTCTAAAGACTTAGT
1 ACCTAAATGACTCTAATGAACATGTATCGACATGAAAGTTCAT-ACATGACTCTAAAGACTTAGT
* * *
2581420 TTTAAAGTACTATT
65 CTTAAAGCACTATA
* * * ** * * * *
2581434 ACCTGAATGA-TCCTTATGGACATACATTGACATGAAAGCTCATACATG-CTCTTAGAGA-TTTG
1 ACCTAAATGACT-CTAATGAACATGTATCGACATGAAAGTTCATACATGACTC-TAAAGACTTAG
2581496 ATCTT-AAGCCACTATA
64 -TCTTAAAG-CACTATA
* *
2581512 ACCTAAATGACTCTAATGAACATGTATCGACATTAAGGTTCATACATGAC
1 ACCTAAATGACTCTAATGAACATGTATCGACATGAAAGTTCATACATGAC
2581562 CCCCAAAACT
Statistics
Matches: 99, Mismatches: 22, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
77 10 0.10
78 86 0.87
79 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (78 bp):
ACCTAAATGACTCTAATGAACATGTATCGACATGAAAGTTCATACATGACTCTAAAGACTTAGTC
TTAAAGCACTATA
Found at i:2581713 original size:29 final size:29
Alignment explanation
Indices: 2581640--2581714 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
2581630 CTCACATAGT
* *
2581640 CCTAAAATAATGAAAATTTCTATAATGAC
1 CCTAAAATAATAAAAATATCTATAATGAC
* * *
2581669 CCTAAACT-ATGTAAAATAATCTA-AATGGC
1 CCTAAAATAAT-AAAAAT-ATCTATAATGAC
2581698 CCTAAAATAATAAAAAT
1 CCTAAAATAATAAAAAT
2581715 TACCAAGTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
28 2 0.05
29 29 0.78
30 6 0.16
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.28
Consensus pattern (29 bp):
CCTAAAATAATAAAAATATCTATAATGAC
Found at i:2581817 original size:29 final size:29
Alignment explanation
Indices: 2581785--2581890 Score: 72
Period size: 29 Copynumber: 3.6 Consensus size: 29
2581775 GCTTAATGGT
2581785 TCCTAGATTATGAAAAATAACCTAAATGA
1 TCCTAGATTATGAAAAATAACCTAAATGA
* * ** *
2581814 TCCTAAAATTCATG-AAAATTACC-ATTTGG
1 TCCT-AGATT-ATGAAAAATAACCTAAATGA
** *
2581843 TCCCTAGATTATGGCAAATAACATAAATGA
1 T-CCTAGATTATGAAAAATAACCTAAATGA
*
2581873 ACCTAGAATTTATGAAAA
1 TCCTAG-A-TTATGAAAA
2581891 TTACAAAATG
Statistics
Matches: 55, Mismatches: 15, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
28 3 0.05
29 23 0.42
30 19 0.35
31 10 0.18
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.29
Consensus pattern (29 bp):
TCCTAGATTATGAAAAATAACCTAAATGA
Found at i:2581906 original size:59 final size:59
Alignment explanation
Indices: 2581736--2581908 Score: 193
Period size: 59 Copynumber: 2.9 Consensus size: 59
2581726 CTCGAAATTG
* * * * ** *
2581736 TGAAAAATAACTTAAATGACCCTAAAATGTATGAAAATTGCTTAATGGTTCCTAGATTA
1 TGAAAAATAACATAAATGAACCTAAAATTTATGAAAATTACAAAATGGTCCCTAGATTA
* * * * **
2581795 TGAAAAATAACCTAAATGATCCTAAAATTCATGAAAATTACCATTTGGTCCCTAGATTA
1 TGAAAAATAACATAAATGAACCTAAAATTTATGAAAATTACAAAATGGTCCCTAGATTA
** * *
2581854 TGGCAAATAACATAAATGAACCTAGAATTTATGAAAATTACAAAATGATCCCTAG
1 TGAAAAATAACATAAATGAACCTAAAATTTATGAAAATTACAAAATGGTCCCTAG
2581909 TATGCATGAA
Statistics
Matches: 94, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
59 94 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.29
Consensus pattern (59 bp):
TGAAAAATAACATAAATGAACCTAAAATTTATGAAAATTACAAAATGGTCCCTAGATTA
Found at i:2583485 original size:33 final size:33
Alignment explanation
Indices: 2583423--2583488 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2583413 CCGTTACACG
* * *
2583423 CAATGTATCGCTACATTTCATCATTTATCGATA
1 CAATGTATCGATACATTTCACCATGTATCGATA
2583456 CAATGTATCGATACATTGT-ACCATGTATCGATA
1 CAATGTATCGATACATT-TCACCATGTATCGATA
2583489 TAAATAGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (33 bp):
CAATGTATCGATACATTTCACCATGTATCGATA
Found at i:2583559 original size:13 final size:13
Alignment explanation
Indices: 2583541--2583567 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2583531 ACAATTGTCC
2583541 ATGTATTGATACA
1 ATGTATTGATACA
2583554 ATGTATTGATACA
1 ATGTATTGATACA
2583567 A
1 A
2583568 AGCATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:2584157 original size:20 final size:20
Alignment explanation
Indices: 2584132--2584172 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2584122 TTTCGTTTTG
2584132 TTCCCCCTTA-AAAAAAAATT
1 TTCCCCC-TAGAAAAAAAATT
*
2584152 TTCCCCCTAGATAAAAAATT
1 TTCCCCCTAGAAAAAAAATT
2584172 T
1 T
2584173 CCTCATGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.32
Consensus pattern (20 bp):
TTCCCCCTAGAAAAAAAATT
Found at i:2586025 original size:13 final size:13
Alignment explanation
Indices: 2586007--2586032 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2585997 CAATTTTTTG
2586007 TGTATCGATACAT
1 TGTATCGATACAT
2586020 TGTATCGATACAT
1 TGTATCGATACAT
2586033 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2587257 original size:13 final size:13
Alignment explanation
Indices: 2587239--2587264 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2587229 ATAGTACCCT
2587239 ATGTATCGATACA
1 ATGTATCGATACA
2587252 ATGTATCGATACA
1 ATGTATCGATACA
2587265 TGTCTCTATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2593317 original size:20 final size:20
Alignment explanation
Indices: 2593292--2593344 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
2593282 GTTACACGCA
2593292 ATGTATCGATACATT-T-CAT
1 ATGTATCGATACATTGTAC-T
2593311 CATGTATCGATACATTGTACT
1 -ATGTATCGATACATTGTACT
2593332 ATGTATCGATACA
1 ATGTATCGATACA
2593345 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 28 0.90
21 2 0.06
22 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACT
Found at i:2593399 original size:20 final size:20
Alignment explanation
Indices: 2593374--2593428 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
2593364 CTGCCAATTT
**
2593374 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
*
2593394 CATGTATCGATAC-AGTGAA
1 CATGTATCGATACAATTGAA
2593413 CATGTATCGATACAAT
1 CATGTATCGATACAAT
2593429 GTATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2593432 original size:13 final size:13
Alignment explanation
Indices: 2593414--2593439 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2593404 TACAGTGAAC
2593414 ATGTATCGATACA
1 ATGTATCGATACA
2593427 ATGTATCGATACA
1 ATGTATCGATACA
2593440 TCTGGGTGTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2594364 original size:17 final size:17
Alignment explanation
Indices: 2594342--2594397 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
2594332 TTATTAAAAT
*
2594342 TATTAAAATTATATTTA
1 TATTAAAAATATATTTA
* *
2594359 TATTAAATAATAAATTACA
1 TATTAAA-AATATATT-TA
2594378 TATTAAAAATATATTTA
1 TATTAAAAATATATTTA
2594395 TAT
1 TAT
2594398 AAATAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 11 0.34
18 13 0.41
19 8 0.25
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTAAAAATATATTTA
Found at i:2594382 original size:19 final size:18
Alignment explanation
Indices: 2594358--2594407 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
2594348 AATTATATTT
2594358 ATATTAAATAATAAATTAC
1 ATATTAAATAATAAATT-C
* *
2594377 ATATTAAA-AATATATTT
1 ATATTAAATAATAAATTC
2594394 ATA-TAAATAATAAA
1 ATATTAAATAATAAA
2594408 AATAGTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.15
17 8 0.30
18 7 0.26
19 8 0.30
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATTAAATAATAAATTC
Found at i:2594387 original size:37 final size:37
Alignment explanation
Indices: 2594307--2594407 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
2594297 CCACATATAC
* * *
2594307 ATAAAATTATATTAATGTTAAATAAT-TATTAAAATT
1 ATAAAATTATATTTATATTAAATAATAAATTAAAATT
*
2594343 ATTAAAATTATATTTATATTAAATAATAAATTACATATT
1 A-TAAAATTATATTTATATTAAATAATAAATTA-AAATT
2594382 A-AAAA-TATATTTATA-TAAATAATAAA
1 ATAAAATTATATTTATATTAAATAATAAA
2594408 AATAGTTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
35 11 0.19
36 11 0.19
37 27 0.47
38 4 0.07
39 5 0.09
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (37 bp):
ATAAAATTATATTTATATTAAATAATAAATTAAAATT
Found at i:2595103 original size:15 final size:14
Alignment explanation
Indices: 2595083--2595122 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
2595073 TAAATTATAT
2595083 ATTTTTAAAAAATA
1 ATTTTTAAAAAATA
*
2595097 ATCTTTTCAAAAATA
1 AT-TTTTAAAAAATA
2595112 ATTTTTAAAAA
1 ATTTTTAAAAA
2595123 GATGAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTTTTAAAAAATA
Found at i:2595476 original size:26 final size:29
Alignment explanation
Indices: 2595447--2595512 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 29
2595437 TGTCAATTTG
*
2595447 TTTTATAAAAGTGG-ATGAATGATA-A-A
1 TTTTTTAAAAGTGGTATGAATGATATATA
* *
2595473 TTTTTTGAAAG-GGTATGGATGATATATA
1 TTTTTTAAAAGTGGTATGAATGATATATA
2595501 TTTTTTAAAAGT
1 TTTTTTAAAAGT
2595513 CATGGATGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
25 2 0.06
26 18 0.56
27 1 0.03
28 11 0.34
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (29 bp):
TTTTTTAAAAGTGGTATGAATGATATATA
Found at i:2595553 original size:31 final size:32
Alignment explanation
Indices: 2595503--2595563 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
2595493 GATATATATT
**
2595503 TTTTAAAAGTCATGGATG-AATAAAATATAAC
1 TTTTAAAAGTCATAAATGAAATAAAATATAAC
*
2595534 TTTTAAAAGTTATAAATGAAAATAAAATAT
1 TTTTAAAAGTCATAAATG-AAATAAAATAT
2595564 TAATAAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 15 0.60
33 10 0.40
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.34
Consensus pattern (32 bp):
TTTTAAAAGTCATAAATGAAATAAAATATAAC
Found at i:2595570 original size:21 final size:21
Alignment explanation
Indices: 2595545--2595591 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
2595535 TTTAAAAGTT
2595545 ATAAATGAAAATAAAATATTA
1 ATAAATGAAAATAAAATATTA
2595566 ATAAATGAAAATAAAATATTA
1 ATAAATGAAAATAAAATATTA
2595587 ATAAA
1 ATAAA
2595592 GATTGTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (21 bp):
ATAAATGAAAATAAAATATTA
Found at i:2596979 original size:15 final size:15
Alignment explanation
Indices: 2596959--2597001 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
2596949 AACATCCTCT
2596959 TTGGTCACGG-TCACG
1 TTGGTCACGGCT-ACG
*
2596974 TTGGTCACGGCTATG
1 TTGGTCACGGCTACG
2596989 TTGGTCACGGCTA
1 TTGGTCACGGCTA
2597002 ACACCCTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 25 0.96
16 1 0.04
ACGTcount: A:0.14, C:0.23, G:0.33, T:0.30
Consensus pattern (15 bp):
TTGGTCACGGCTACG
Found at i:2597051 original size:15 final size:15
Alignment explanation
Indices: 2597031--2597059 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2597021 TGTTGGGCCC
2597031 AGGCTACCACTCCGT
1 AGGCTACCACTCCGT
2597046 AGGCTACCACTCCG
1 AGGCTACCACTCCG
2597060 AGTGTTGAGC
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:0.21, C:0.41, G:0.21, T:0.17
Consensus pattern (15 bp):
AGGCTACCACTCCGT
Found at i:2600062 original size:53 final size:53
Alignment explanation
Indices: 2599982--2600179 Score: 387
Period size: 53 Copynumber: 3.7 Consensus size: 53
2599972 TTGTGGATTA
*
2599982 GTATTAAAAGTATAGAATTGTACGCTAAAAGTTAATCAAATAAGCTGTGAAGG
1 GTATTAAAAGTATAGAATTGTATGCTAAAAGTTAATCAAATAAGCTGTGAAGG
2600035 GTATTAAAAGTATAGAATTGTATGCTAAAAGTTAATCAAATAAGCTGTGAAGG
1 GTATTAAAAGTATAGAATTGTATGCTAAAAGTTAATCAAATAAGCTGTGAAGG
2600088 GTATTAAAAGTATAGAATTGTATGCTAAAAGTTAATCAAATAAGCTGTGAAGG
1 GTATTAAAAGTATAGAATTGTATGCTAAAAGTTAATCAAATAAGCTGTGAAGG
2600141 GTATTAAAAGTATAGAATTGTATGCTAAAAGTTAATCAA
1 GTATTAAAAGTATAGAATTGTATGCTAAAAGTTAATCAA
2600180 GTATAGAATT
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
53 144 1.00
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (53 bp):
GTATTAAAAGTATAGAATTGTATGCTAAAAGTTAATCAAATAAGCTGTGAAGG
Found at i:2600221 original size:34 final size:34
Alignment explanation
Indices: 2600141--2600238 Score: 141
Period size: 30 Copynumber: 3.0 Consensus size: 34
2600131 GCTGTGAAGG
2600141 GTATTAAAAGTATAGAATTGTATGCTAAAAGTTA
1 GTATTAAAAGTATAGAATTGTATGCTAAAAGTTA
* *
2600175 --A-T-CAAGTATAGAATTGTACGCTAAAAGTTA
1 GTATTAAAAGTATAGAATTGTATGCTAAAAGTTA
*
2600205 GTATTAGAAGTATAGAATTGTATGCTAAAAGTTA
1 GTATTAAAAGTATAGAATTGTATGCTAAAAGTTA
2600239 ATCAAACGCA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
30 26 0.46
31 1 0.02
32 2 0.04
33 1 0.02
34 26 0.46
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (34 bp):
GTATTAAAAGTATAGAATTGTATGCTAAAAGTTA
Found at i:2603336 original size:2 final size:2
Alignment explanation
Indices: 2603329--2603392 Score: 74
Period size: 2 Copynumber: 32.0 Consensus size: 2
2603319 TGTGCACAAC
**
2603329 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
2603371 AC AT AT GT AT AT GT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
2603393 GTTTCAGATT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2607959 original size:38 final size:37
Alignment explanation
Indices: 2607876--2607973 Score: 126
Period size: 37 Copynumber: 2.6 Consensus size: 37
2607866 TTGTGGCATA
2607876 GGTTAGAACAAAAAATACTATTCTAATCCGGTAGCAC
1 GGTTAGAACAAAAAATACTATTCTAATCCGGTAGCAC
* ** *
2607913 GGTCAGAACAAAAACCACTATTCTTAAT-CGGTAGCAT
1 GGTTAGAACAAAAAATACTATTC-TAATCCGGTAGCAC
*
2607950 GGTTTAGAACAAAAATTACTATTC
1 GG-TTAGAACAAAAAATACTATTC
2607974 ATACCAGTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
37 30 0.58
38 22 0.42
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (37 bp):
GGTTAGAACAAAAAATACTATTCTAATCCGGTAGCAC
Found at i:2608111 original size:37 final size:37
Alignment explanation
Indices: 2608032--2608193 Score: 96
Period size: 37 Copynumber: 4.4 Consensus size: 37
2608022 CGGATCGAGG
* * * *
2608032 CAAAAACTATTATTTTTTCCGGTGGCATGAGTCGGAA
1 CAAAAACTATTATTCTTACCAGTGGCATGAGTCAGAA
* * *
2608069 CAAAAACTATTATTCTTACCAGTGTCATGGGTTAGAA
1 CAAAAACTATTATTCTTACCAGTGGCATGAGTCAGAA
* * * * * ** *
2608106 TAAAAA-TCACTATTCTTATCGGTAGCACAAGTCAAAA
1 CAAAAACT-ATTATTCTTACCAGTGGCATGAGTCAGAA
* * * * *
2608143 CAAAAA-TCACTATTCTTATCGGTGGCACGGGTC-GAAA
1 CAAAAACT-ATTATTCTTACCAGTGGCATGAGTCAG-AA
2608180 CAAAAACTATTATT
1 CAAAAACTATTATT
2608194 TTTAACTGGT
Statistics
Matches: 98, Mismatches: 24, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
36 1 0.01
37 96 0.98
38 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (37 bp):
CAAAAACTATTATTCTTACCAGTGGCATGAGTCAGAA
Found at i:2608185 original size:111 final size:108
Alignment explanation
Indices: 2607876--2608193 Score: 282
Period size: 111 Copynumber: 2.9 Consensus size: 108
2607866 TTGTGGCATA
* *
2607876 GGTTAGAACAAAAAAT-ACTATTCTAATCCGGTAGCACGGTCAGAACAAAAACCACTATTCTTAA
1 GGTTAGAA-AAAAAATCACTATTCTTAT-CGGTAGCACGGTCAAAACAAAAA-CACTATTCTT-A
* * ** * *
2607940 TCGGTAGCATGGTTTAGAACAAAAATTACTATTCATACCAGTGGCACG
62 TCGGTGGCAGGGTCGA-AACAAAAACTATTATTCATACCAGTGGCACG
* * * * * * ** * *
2607988 GGTTGGAACAAAAATCACT-TTCTTACCGATGGCACGGATCGAGGCAAAAACTATTATT-TTTTC
1 GGTTAGAAAAAAAATCACTATTCTTATCGGTAGCACGG-TCAAAACAAAAAC-ACTATTCTTAT-
* * * * *
2608051 CGGTGGCATGAGTCGGAACAAAAACTATTATTCTTACCAGTGTCATG
63 CGGTGGCA-GGGTCGAAACAAAAACTATTATTCATACCAGTGGCACG
* *
2608098 GGTTAGAATAAAAATCACTATTCTTATCGGTAGCACAAGTCAAAACAAAAATCACTATTCTTATC
1 GGTTAGAAAAAAAATCACTATTCTTATCGGTAGCAC-GGTCAAAACAAAAA-CACTATTCTTATC
2608163 GGTGGCACGGGTCGAAACAAAAACTATTATT
64 GGTGGCA-GGGTCGAAACAAAAACTATTATT
2608194 TTTAACTGGT
Statistics
Matches: 160, Mismatches: 37, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
109 1 0.01
110 62 0.39
111 82 0.51
112 15 0.09
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (108 bp):
GGTTAGAAAAAAAATCACTATTCTTATCGGTAGCACGGTCAAAACAAAAACACTATTCTTATCGG
TGGCAGGGTCGAAACAAAAACTATTATTCATACCAGTGGCACG
Found at i:2616533 original size:16 final size:17
Alignment explanation
Indices: 2616514--2616546 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2616504 ATAATAGCAT
2616514 TATAAA-TTAATAAAAA
1 TATAAATTTAATAAAAA
2616530 TATAAATTTAATAAAAA
1 TATAAATTTAATAAAAA
2616547 ATTACAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAATTTAATAAAAA
Found at i:2616794 original size:25 final size:26
Alignment explanation
Indices: 2616743--2616794 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
2616733 TACAATTAAA
*
2616743 AAAAAATTCATATCATTATATATAATT
1 AAAAAATTCATAT-ATTATATAGAATT
2616770 AAAAAATTCATAT-TTAT-TAAGAATT
1 AAAAAATTCATATATTATAT-AGAATT
2616795 TCTTAGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 1 0.04
25 9 0.39
27 13 0.57
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (26 bp):
AAAAAATTCATATATTATATAGAATT
Found at i:2617176 original size:41 final size:41
Alignment explanation
Indices: 2617126--2617207 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
2617116 ACAAGATACA
*
2617126 ATGCGTAACGAAAAAATACAACAAAAAAGCTAGTTAGATGC
1 ATGCGTAACGAAAAAATACAACAAAAAAACTAGTTAGATGC
* *
2617167 ATGCGTAACGGAAAAATACAACAAAAAAATTAGTTAGATGC
1 ATGCGTAACGAAAAAATACAACAAAAAAACTAGTTAGATGC
2617208 TTCTAGGATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.18
Consensus pattern (41 bp):
ATGCGTAACGAAAAAATACAACAAAAAAACTAGTTAGATGC
Found at i:2618713 original size:7 final size:7
Alignment explanation
Indices: 2618704--2618737 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
2618694 AATTTTGCAC
*
2618704 GTGCCAC
1 GTGCCAA
2618711 GTGCCAA
1 GTGCCAA
2618718 GTGCCAA
1 GTGCCAA
2618725 GTGCCAA
1 GTGCCAA
2618732 GTGCCA
1 GTGCCA
2618738 TATAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.15
Consensus pattern (7 bp):
GTGCCAA
Found at i:2623253 original size:18 final size:18
Alignment explanation
Indices: 2623218--2623258 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
2623208 TTTGTAAAGA
2623218 AAAATAGAAAATTTATTTT
1 AAAATAGAAAATTTA-TTT
*
2623237 AAAATATAAAA-TTATTT
1 AAAATAGAAAATTTATTT
2623254 AAAAT
1 AAAAT
2623259 TATATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 3 0.14
19 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATAGAAAATTTATTT
Found at i:2625274 original size:23 final size:23
Alignment explanation
Indices: 2625248--2625302 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
2625238 TAATAAATTA
2625248 AATTTAAATGATTTAAAGTAAAT
1 AATTTAAATGATTTAAAGTAAAT
**
2625271 AATTTAAATGATTTAATTTAAAT
1 AATTTAAATGATTTAAAGTAAAT
*
2625294 GATTTAAAT
1 AATTTAAAT
2625303 TTGAATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (23 bp):
AATTTAAATGATTTAAAGTAAAT
Found at i:2625287 original size:14 final size:14
Alignment explanation
Indices: 2625270--2625300 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2625260 TTAAAGTAAA
2625270 TAATTTAAATGATT
1 TAATTTAAATGATT
2625284 TAATTTAAATGATT
1 TAATTTAAATGATT
2625298 TAA
1 TAA
2625301 ATTTGAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (14 bp):
TAATTTAAATGATT
Found at i:2625291 original size:37 final size:37
Alignment explanation
Indices: 2625245--2625363 Score: 123
Period size: 38 Copynumber: 3.2 Consensus size: 37
2625235 AATTAATAAA
*
2625245 TTAAATTTAAATGATTTAAA-GTAAATAATTTAAATG
1 TTAAATTTAAATGATTTAAATGTAAATAATTAAAATG
* * *
2625281 ATTTAATTTAAATGATTTAAATTTGAATAATTAAAATG
1 -TTAAATTTAAATGATTTAAATGTAAATAATTAAAATG
* * * * *
2625319 TTAAATTCAAAATGATTTAAATATAAAATTATTTAAATT
1 TTAAATT-TAAATGATTTAAATGT-AAATAATTAAAATG
2625358 TTAAAT
1 TTAAAT
2625364 AATTTAAACT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
37 25 0.37
38 27 0.40
39 16 0.24
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.44
Consensus pattern (37 bp):
TTAAATTTAAATGATTTAAATGTAAATAATTAAAATG
Found at i:2625332 original size:38 final size:38
Alignment explanation
Indices: 2625244--2625345 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
2625234 AAATTAATAA
*
2625244 ATTAAATTTAAATGATTTAAA-GTAAATAATTTAAATG
1 ATTAAATTTAAATGATTTAAATGTAAATAATTAAAATG
* * *
2625281 ATTTAATTTAAATGATTTAAATTTGAATAATTAAAATG
1 ATTAAATTTAAATGATTTAAATGTAAATAATTAAAATG
* *
2625319 -TTAAATTCAAAATGATTTAAATATAAA
1 ATTAAATT-TAAATGATTTAAATGTAAA
2625346 ATTATTTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
37 26 0.47
38 29 0.53
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (38 bp):
ATTAAATTTAAATGATTTAAATGTAAATAATTAAAATG
Found at i:2625340 original size:16 final size:16
Alignment explanation
Indices: 2625319--2625376 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
2625309 AATTAAAATG
*
2625319 TTAAATTCAAAATGAT
1 TTAAATTCAAAATAAT
*
2625335 TTAAATAT-AAAATTAT
1 TTAAAT-TCAAAATAAT
**
2625351 TTAAATTTTAAATAAT
1 TTAAATTCAAAATAAT
*
2625367 TTAAACTCAA
1 TTAAATTCAA
2625377 TAAAAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (16 bp):
TTAAATTCAAAATAAT
Found at i:2628138 original size:9 final size:10
Alignment explanation
Indices: 2628126--2628212 Score: 82
Period size: 9 Copynumber: 9.4 Consensus size: 10
2628116 TTTCATTTTA
2628126 ATTTATT-TT
1 ATTTATTATT
2628135 ATTTATT-TCT
1 ATTTATTAT-T
*
2628145 -TTAATTATT
1 ATTTATTATT
2628154 A-TTATTATT
1 ATTTATTATT
* *
2628163 ATTT-CTATG
1 ATTTATTATT
2628172 ATTTATTATT
1 ATTTATTATT
2628182 A-TTATTATT
1 ATTTATTATT
2628191 A-TTATTATT
1 ATTTATTATT
2628200 A-TTATTATT
1 ATTTATTATT
2628209 ATTT
1 ATTT
2628213 GTATGATTAG
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
9 56 0.85
10 10 0.15
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (10 bp):
ATTTATTATT
Found at i:2628150 original size:22 final size:23
Alignment explanation
Indices: 2628122--2628184 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
2628112 TTTTTTTCAT
2628122 TTTAATTTATT-TTATTTATTTC
1 TTTAATTTATTATTATTTATTTC
2628144 TTTAA-TTATTATTATTATTATTTC
1 TTTAATTTATTATTA-T-TTATTTC
* *
2628168 TATGATTTATTATTATT
1 TTTAATTTATTATTATT
2628185 ATTATTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
21 5 0.14
22 8 0.23
23 2 0.06
24 11 0.31
25 9 0.26
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTAATTTATTATTATTTATTTC
Found at i:2628156 original size:3 final size:3
Alignment explanation
Indices: 2628148--2628211 Score: 94
Period size: 3 Copynumber: 21.0 Consensus size: 3
2628138 TATTTCTTTA
*
2628148 ATT ATT ATT ATT ATT ATT -TCT ATG ATTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT A-TT ATT ATT ATT ATT ATT ATT
2628194 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
2628212 TGTATGATTA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 1 0.02
3 52 0.93
4 3 0.05
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2629218 original size:19 final size:19
Alignment explanation
Indices: 2629194--2629242 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2629184 GGATGTTAAT
2629194 GAATAAATGAAATAGACGA
1 GAATAAATGAAATAGACGA
2629213 GAATAAATGAAATAGACGA
1 GAATAAATGAAATAGACGA
*
2629232 GAATGAATGAA
1 GAATAAATGAA
2629243 TGAGCCAGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.57, C:0.04, G:0.22, T:0.16
Consensus pattern (19 bp):
GAATAAATGAAATAGACGA
Found at i:2631148 original size:34 final size:33
Alignment explanation
Indices: 2631082--2631144 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
2631072 TTGACTACTT
*
2631082 TTTTTATTTTCTTTTTGCGTTTTTCACTTTTCA
1 TTTTTATTTTCTTTTTGCGTTTTTAACTTTTCA
*
2631115 CTTTTTATTTT-TTTTT-CTTTTTTAACTTTT
1 -TTTTTATTTTCTTTTTGCGTTTTTAACTTTT
2631145 TTCATTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 12 0.44
33 5 0.19
34 10 0.37
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.75
Consensus pattern (33 bp):
TTTTTATTTTCTTTTTGCGTTTTTAACTTTTCA
Found at i:2633011 original size:21 final size:22
Alignment explanation
Indices: 2632952--2633013 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
2632942 TCAGTATGAT
2632952 TGCATGAAGTATTGATACATCA
1 TGCATGAAGTATTGATACATCA
** *
2632974 TGCA--AATGTATCAATAC-TTA
1 TGCATGAA-GTATTGATACATCA
2632994 TGCATGAAGTATTGATACAT
1 TGCATGAAGTATTGATACAT
2633014 TTGTTTCCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
20 8 0.26
21 16 0.52
22 7 0.23
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (22 bp):
TGCATGAAGTATTGATACATCA
Found at i:2633115 original size:20 final size:20
Alignment explanation
Indices: 2633090--2633137 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
2633080 ATGCATCCAC
2633090 GTATTTTGTATAAAAATTCT
1 GTATTTTGTATAAAAATTCT
2633110 GTATTTTGTATAAAAATTCT
1 GTATTTTGTATAAAAATTCT
*
2633130 TTATTTTG
1 GTATTTTG
2633138 GCTTCTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.54
Consensus pattern (20 bp):
GTATTTTGTATAAAAATTCT
Found at i:2634210 original size:18 final size:18
Alignment explanation
Indices: 2634187--2634224 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
2634177 GATGGTTATC
2634187 TTACCTAAAGTGACCTCT
1 TTACCTAAAGTGACCTCT
2634205 TTACCTAAAGTGACCTCT
1 TTACCTAAAGTGACCTCT
2634223 TT
1 TT
2634225 GACTCCCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (18 bp):
TTACCTAAAGTGACCTCT
Found at i:2636237 original size:19 final size:19
Alignment explanation
Indices: 2636215--2636256 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
2636205 TTTTTTTATG
2636215 ATTTAATTATAA-ATAAATT
1 ATTTAA-TATAATATAAATT
* *
2636234 ATTTGATATAATTTAAATT
1 ATTTAATATAATATAAATT
2636253 ATTT
1 ATTT
2636257 TAAAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTTAATATAATATAAATT
Found at i:2636895 original size:20 final size:20
Alignment explanation
Indices: 2636870--2636957 Score: 81
Period size: 21 Copynumber: 4.2 Consensus size: 20
2636860 TTTATTCAAT
2636870 TTTTTTAATTTAATTTTTTA
1 TTTTTTAATTTAATTTTTTA
*
2636890 TTTTTTAATTTTATTTTTTTA
1 TTTTTTAA-TTTAATTTTTTA
* *
2636911 TAATTATTT-ATATAA-TTTATA
1 T--TT-TTTAATTTAATTTTTTA
2636932 TTTATTTAATTTAATTTTTATA
1 TTT-TTTAATTTAATTTTT-TA
2636954 TTTT
1 TTTT
2636958 ATGTTTTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
19 6 0.11
20 13 0.24
21 22 0.40
22 8 0.15
23 3 0.05
24 3 0.05
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTTAATTTAATTTTTTA
Found at i:2636935 original size:15 final size:15
Alignment explanation
Indices: 2636915--2636959 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
2636905 TTTTTATAAT
2636915 TATTTATATAATTTA
1 TATTTATATAATTTA
*
2636930 TATTTATTTAATTTA
1 TATTTATATAATTTA
* *
2636945 -ATTTTTATATTTTA
1 TATTTATATAATTTA
2636959 T
1 T
2636960 GTTTTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTATATAATTTA
Found at i:2648366 original size:13 final size:13
Alignment explanation
Indices: 2648348--2648374 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2648338 TCCTAAGAGA
2648348 AGCAGACATGAGG
1 AGCAGACATGAGG
2648361 AGCAGACATGAGG
1 AGCAGACATGAGG
2648374 A
1 A
2648375 CTTTCGCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.37, T:0.07
Consensus pattern (13 bp):
AGCAGACATGAGG
Found at i:2652177 original size:79 final size:78
Alignment explanation
Indices: 2651962--2652215 Score: 355
Period size: 79 Copynumber: 3.2 Consensus size: 78
2651952 CATTCTAGTG
* *
2651962 GCCACATGGCACGCGATTGAACCCTTATGATGCCAAGTCATTAGCGCCCTGTGACACCAAGTCAC
1 GCCACATGGCACGCAATTGACCCCTTATGATGCCAAGTCATTAGCGCCCTGTGACACCAAGTCAC
2652027 CTTTACTCTGGTC
66 CTTTACTCTGGTC
* * **
2652040 TCCACATGGCACGCACTTGACCCCTTATGATGCCAAGTCATTAATGCCCTGTGACACCAAGTCAC
1 GCCACATGGCACGCAATTGACCCCTTATGATGCCAAGTCATTAGCGCCCTGTGACACCAAGTCAC
2652105 CTTTACTCTGGTC
66 CTTTACTCTGGTC
* * ** * *
2652118 GCCACCATGGCACGTAATTGACCCCTCATGACACCAAGTCATTAGCGCCTTGTGGCACCAAGTCA
1 GCCA-CATGGCACGCAATTGACCCCTTATGATGCCAAGTCATTAGCGCCCTGTGACACCAAGTCA
* *
2652183 CCCTTACTCTGTTC
65 CCTTTACTCTGGTC
*
2652197 TCCACCATGGCACGCAATT
1 GCCA-CATGGCACGCAATT
2652216 AAAGCCCTGT
Statistics
Matches: 155, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 75 0.48
79 80 0.52
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (78 bp):
GCCACATGGCACGCAATTGACCCCTTATGATGCCAAGTCATTAGCGCCCTGTGACACCAAGTCAC
CTTTACTCTGGTC
Found at i:2660898 original size:21 final size:21
Alignment explanation
Indices: 2660874--2660943 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 21
2660864 GAAAAAGCAC
2660874 AAAAAATGAAAAGAAAAAT-A
1 AAAAAATGAAAAGAAAAATAA
* * *
2660894 AAAAATTGTAAAAGCAAATTAA
1 AAAAAATG-AAAAGAAAAATAA
* *
2660916 AAAAAAGGGAACAACAAAAATAA
1 AAAAAA-TGAA-AAGAAAAATAA
2660939 AAAAA
1 AAAAA
2660944 CGAGGACATG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
20 7 0.18
21 9 0.24
22 8 0.21
23 14 0.37
ACGTcount: A:0.74, C:0.04, G:0.10, T:0.11
Consensus pattern (21 bp):
AAAAAATGAAAAGAAAAATAA
Found at i:2662255 original size:27 final size:27
Alignment explanation
Indices: 2662225--2663258 Score: 679
Period size: 27 Copynumber: 37.4 Consensus size: 27
2662215 CCAAGATTTA
2662225 GTGGCATCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* *
2662252 GTGGCAT-CTTTTAAGTCCATAACTTC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* *
2662278 GTGGTATCCTTTTAAGTCCACAATTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* *
2662305 ATGGCATCCTTTTAAGTCCACAACCCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* *
2662332 GTGGCATCTTTTTAAAGTCCACAACTCT
1 GTGGCATCCTTTT-AAGTCCACAACTCC
**
2662360 GTGGCATTATTTTAAAGTCCACAAC-CC
1 GTGGCATCCTTTT-AAGTCCACAACTCC
*
2662387 TGTAGCATCCTTTTAAGTCCACAACTCC
1 -GTGGCATCCTTTTAAGTCCACAACTCC
*
2662415 ATGGCATCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* *
2662442 GTGGCATCTTTTTAAGTCCATAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
*
2662469 GTGGCATCCTTTTAAAGTCCACAACTCT
1 GTGGCATCCTTTT-AAGTCCACAACTCC
* *
2662497 ATGGCATCCTTTTAAGTCCACAACTTC
1 GTGGCATCCTTTTAAGTCCACAACTCC
**
2662524 GTGGCATCCTTTTAAGTCCACAACTTT
1 GTGGCATCCTTTTAAGTCCACAACTCC
* *
2662551 GTGGCATCCTTTTAAAATCCACAACTCT
1 GTGGCATCCTTTT-AAGTCCACAACTCC
* *
2662579 GGGGCATCTTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * * *
2662606 GTGGCATCCTTTTAAGCCCATAAGTCA
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * ** * **
2662633 GTGGTACCCTTCCAAAG-CCTACAAGTTA
1 GTGGCATCCTT-TTAAGTCC-ACAACTCC
* ** * * *
2662661 GTGGCACCCCTTCCAAAGCCCACAAGTCA
1 GTGGCA-TCCTT-TTAAGTCCACAACTCC
** * * **
2662690 GTGGCA-CTCTTCCAAAGCCCACAAGTTA
1 GTGGCATC-CTT-TTAAGTCCACAACTCC
* * * *
2662718 GTGGCACCCCTTTCAAAG-CTCACAAGTCA
1 GTGGCA-TCCTTT-TAAGTC-CACAACTCC
* * **
2662747 GTGGCA-CCTTTCTAAAGCCCACAAGTTA
1 GTGGCATCCTTT-T-AAGTCCACAACTCC
* * * * *
2662775 ATGGCACCCCTTTTTAAGCCCACAAGTCA
1 GTGGCA-TCC-TTTTAAGTCCACAACTCC
* * *
2662804 GTGGCA--CTTTTCCAAAGCCCACAAGTCA
1 GTGGCATCCTTTT---AAGTCCACAACTCC
* ** ** * * **
2662832 ATGGCCCCCCCTTCAAAG-CCTATAAGTTA
1 GTGG--CATCCTTTTAAGTCC-ACAACTCC
* * * * *
2662861 GCGGCATCATTTTTAAGCCCACAAGTCA
1 GTGGCATC-CTTTTAAGTCCACAACTCC
*
2662889 GTGGCATCCTTTTTTAAGCCCACAACTCC
1 GTGGCATCC--TTTTAAGTCCACAACTCC
* * * *
2662918 ATGGCACCCTTTAAAGTTCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* *
2662945 GTGGCACCCTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * *
2662972 GGGGTATCCTTTTAAGTCCACAACTCT
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * *
2662999 GTGGCACCCTTTAAATTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
*
2663026 GTGGCACCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * * *
2663053 GTGGCACTCTTTTTAAAGTCCTCCACTTC
1 GTGGCA-TCCTTTT-AAGTCCACAACTCC
*
2663082 GTGGCA-CCTTTTTAAGTCCACAATTCC
1 GTGGCATCC-TTTTAAGTCCACAACTCC
*
2663109 GTGGCACCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * * *
2663136 GTGGCACTCTTTTTAAAGTCCGCCACTTC
1 GTGGCA-TCCTTTT-AAGTCCACAACTCC
* *
2663165 GTGGCA-CCTTTTTAAGTCCATAACTCT
1 GTGGCATCC-TTTTAAGTCCACAACTCC
* *
2663192 ATGGCA-CCTTTTAAAGTCCACAAGTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCC
** * * * *
2663219 GTGGCATTATTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTT-TAAGTCCACAACTCC
2663247 GTGGCATCCTTT
1 GTGGCATCCTTT
2663259 CAAAACCCAT
Statistics
Matches: 831, Mismatches: 134, Indels: 83
0.79 0.13 0.08
Matches are distributed among these distances:
25 4 0.00
26 28 0.03
27 420 0.51
28 232 0.28
29 134 0.16
30 7 0.01
31 3 0.00
32 3 0.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (27 bp):
GTGGCATCCTTTTAAGTCCACAACTCC
Found at i:2662363 original size:28 final size:28
Alignment explanation
Indices: 2662225--2663534 Score: 666
Period size: 28 Copynumber: 47.3 Consensus size: 28
2662215 CCAAGATTTA
*
2662225 GTGGCATCCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCT
*
2662252 GTGGCAT-CTTTT-AAGTCCATAACT-T
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* * *
2662277 CGTGGTATCCTTTT-AAGTCCACAATTCC
1 -GTGGCATCCTTTTAAAGTCCACAACTCT
* * *
2662305 ATGGCATCCTTTT-AAGTCCACAACCCC
1 GTGGCATCCTTTTAAAGTCCACAACTCT
*
2662332 GTGGCATCTTTTTAAAGTCCACAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCT
** *
2662360 GTGGCATTATTTTAAAGTCCACAACCCT
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* *
2662388 GTAGCATCCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* *
2662415 ATGGCATCCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* * *
2662442 GTGGCAT-CTTTTTAAGTCCATAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCT
2662469 GTGGCATCCTTTTAAAGTCCACAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCT
*
2662497 ATGGCATCCTTTT-AAGTCCACAACT-T
1 GTGGCATCCTTTTAAAGTCCACAACTCT
*
2662523 CGTGGCATCCTTTT-AAGTCCACAACTTT
1 -GTGGCATCCTTTTAAAGTCCACAACTCT
*
2662551 GTGGCATCCTTTTAAAATCCACAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* * *
2662579 GGGGCAT-CTTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* * * *
2662606 GTGGCATCCTTTT-AAGCCCATAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* * ** *
2662633 GTGGTACCCTTCCAAAG-CCTACAAGT-T
1 GTGGCATCCTTTTAAAGTCC-ACAACTCT
* ** * * *
2662660 AGTGGCACCCCTTCCAAAGCCCACAAGTCA
1 -GTGGCA-TCCTTTTAAAGTCCACAACTCT
** * *
2662690 GTGGCA-CTCTTCCAAAGCCCACAAGT-T
1 GTGGCATC-CTTTTAAAGTCCACAACTCT
* * * *
2662717 AGTGGCACCCCTTTCAAAG-CTCACAAGTCA
1 -GTGGCA-TCCTTTTAAAGTC-CACAACTCT
* *
2662747 GTGGCA-CCTTTCTAAAGCCCACAAGT-T
1 GTGGCATCCTTT-TAAAGTCCACAACTCT
* * * * * *
2662774 AATGGCACCCCTTTTTAAGCCCACAAGTCA
1 -GTGGCA-TCCTTTTAAAGTCCACAACTCT
* * *
2662804 GTGGCA--CTTTTCCAAAGCCCACAAGTCA
1 GTGGCATCCTTTT--AAAGTCCACAACTCT
* ** * * * *
2662832 ATGGCCCCCCCTTCAAAG-CCTATAAGT-T
1 GTGG-CATCCTTTTAAAGTCC-ACAACTCT
* * * * * *
2662860 AGCGGCATCATTTTTAAGCCCACAAGTCA
1 -GTGGCATCCTTTTAAAGTCCACAACTCT
* * *
2662889 GTGGCATCCTTTTTTAAGCCCACAACTCC
1 GTGGCATCC-TTTTAAAGTCCACAACTCT
* * * *
2662918 ATGGCA-CCCTTTAAAGTTCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* *
2662945 GTGGCA-CCCTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* *
2662972 GGGGTATCCTTTT-AAGTCCACAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* * *
2662999 GTGGCA-CCCTTTAAATTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* *
2663026 GTGGCACCCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* * *
2663053 GTGGCACTCTTTTTAAAGTCCTCCACT-T
1 GTGGCA-TCCTTTTAAAGTCCACAACTCT
* * *
2663081 CGTGGCA-CCTTTTTAAGTCCACAATTCC
1 -GTGGCATCCTTTTAAAGTCCACAACTCT
* *
2663109 GTGGCACCCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* * *
2663136 GTGGCACTCTTTTTAAAGTCCGCCACT-T
1 GTGGCA-TCCTTTTAAAGTCCACAACTCT
* *
2663164 CGTGGCA-CCTTTTTAAGTCCATAACTCT
1 -GTGGCATCCTTTTAAAGTCCACAACTCT
* * *
2663192 ATGGCA-CCTTTTAAAGTCCACAAGTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCT
** * * * *
2663219 GTGGCATTATTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* ** * * *
2663247 GTGGCATCCTTTCAAAACCCATAAGTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* * * * * *
2663275 GTGGCATCATTTCAAAGCCCATAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* * * *
2663303 GTGGCA-CCATTTCAAAGCCCACAAGTCA
1 GTGGCATCC-TTTTAAAGTCCACAACTCT
* * * * *
2663331 GTGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* * * * *
2663359 GTGGTA-CCATTTCAAAGCCCACAAGTCA
1 GTGGCATCC-TTTTAAAGTCCACAACTCT
** * * * *
2663387 GTGGCATTATTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* *
2663415 GTGGCA-CCATTTTAAAGCCCATAACT-T
1 GTGGCATCC-TTTTAAAGTCCACAACTCT
* * * * * *
2663442 AGTGGCATCATTTCAAAGCCCATAAGTCA
1 -GTGGCATCCTTTTAAAGTCCACAACTCT
* * * * * *
2663471 GTGGCATCATTTCAAAGCCCATAAGTCA
1 GTGGCATCCTTTTAAAGTCCACAACTCT
* * * *
2663499 GTGGCATCCTTTCAAAGCCCCCAAGTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCT
2663527 GTGGCATC
1 GTGGCATC
2663535 ATTTCAACAC
Statistics
Matches: 1063, Mismatches: 161, Indels: 117
0.79 0.12 0.09
Matches are distributed among these distances:
26 38 0.04
27 398 0.37
28 483 0.45
29 133 0.13
30 8 0.01
31 3 0.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (28 bp):
GTGGCATCCTTTTAAAGTCCACAACTCT
Found at i:2662455 original size:82 final size:81
Alignment explanation
Indices: 2662225--2663258 Score: 565
Period size: 82 Copynumber: 12.5 Consensus size: 81
2662215 CCAAGATTTA
* * *
2662225 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCAT-CTTTTAAGTCCATAACTTCGTGGTATCCTT
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTT
*
2662289 TTAAGTCCACAATTCC-
66 TTAAGTCCACAA-CCCT
* * * * **
2662305 ATGGCATCCTTTTAAGTCCACAACCCCGTGGCATCTTTTTAAAGTCCACAACTCTGTGGCATTAT
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCT
2662370 TTTAAAGTCCACAACCCT
65 TTT-AAGTCCACAACCCT
* * *
2662388 GTAGCATCCTTTTAAGTCCACAACTCCATGGCATCCTTTTAAGTCCACAACTCCGTGGCATCTTT
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTT
*
2662453 TTAAGTCCATAACTCC-
66 TTAAGTCCACAAC-CCT
** *
2662469 GTGGCATCCTTTTAAAGTCCACAACTCTATGGCATCCTTTTAAGTCCACAACTTCGTGGCATCCT
1 GTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCT
**
2662534 TTTAAGTCCACAACTTT
65 TTTAAGTCCACAACCCT
* * * *
2662551 GTGGCATCCTTTTAAAATCCACAACTCTGGGGCATCTTTTTAAGTCCACAACTCCGTGGCATCCT
1 GTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCT
* * ** *
2662616 TTTAAGCCCATAAGTCA
65 TTTAAGTCCACAACCCT
* * ** * ** * ** * * *
2662633 GTGGTACCCTTCCAAAG-CCTACAAGTTAGTGGCACCCCTTCCAAAGCCCACAAGTCAGTGGCA-
1 GTGGCATCCTT-TTAAGTCC-ACAACTCCGTGGCA-TCCTT-TTAAGTCCACAACTCCGTGGCAT
** * **
2662696 CTCTTCCAAAGCCCACAA-GTT
62 C-CTT-TTAAGTCCACAACCCT
* * * * * * ***
2662717 AGTGGCACCCCTTTCAAAG-CTCACAAGTCAGTGGCA-CCTTTCTAAAGCCCACAAGTTAATGGC
1 -GTGGCA-TCCTTT-TAAGTC-CACAACTCCGTGGCATCCTTT-T-AAGTCCACAACTCCGTGGC
* * ** *
2662780 ACCCCTTTTTAAGCCCACAAGTCA
60 A-TCC-TTTTAAGTCCACAACCCT
* * ** ** ** * * ** *
2662804 GTGGCA--CTTTTCCAAAGCCCACAAGTCAATGGCCCCCCCTTCAAAG-CCTATAAGTTAGCGGC
1 GTGGCATCCTTTT---AAGTCCACAACTCCGTGG--CATCCTTTTAAGTCC-ACAACTCCGTGGC
* * ** *
2662866 ATCATTTTTAAGCCCACAAGTCA
60 ATC-CTTTTAAGTCCACAACCCT
* * * * * *
2662889 GTGGCATCCTTTTTTAAGCCCACAACTCCATGGCACCCTTTAAAGTTCACAACTCCGTGGCACCC
1 GTGGCATCC--TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCC
*
2662954 TTTAAAGTCCACAACTCC-
64 TTTTAAGTCCACAAC-CCT
* * * * * * *
2662972 GGGGTATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAATTCCACAACTCCGTGGCACCCTT
1 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTT
2663037 TTAAGTCCACAACTCC-
66 TTAAGTCCACAAC-CCT
* * * * * *
2663053 GTGGCACTCTTTTTAAAGTCCTCCACTTCGTGGCA-CCTTTTTAAGTCCACAATTCCGTGGCACC
1 GTGGCA-TCCTTTT-AAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCATC
2663117 CTTTTAAGTCCACAACTCC-
63 CTTTTAAGTCCACAAC-CCT
* * * * * **
2663136 GTGGCACTCTTTTTAAAGTCCGCCACTTCGTGGCA-CCTTTTTAAGTCCATAACTCTATGGCA-C
1 GTGGCA-TCCTTTT-AAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCATC
*
2663199 CTTTTAAAGTCCACAAGTCC-
63 CTTTT-AAGTCCACAA-CCCT
** * * * *
2663219 GTGGCATTATTTCAAAGCCCACAAGTCAGTGGCATCCTTT
1 GTGGCATCCTTT-TAAGTCCACAACTCCGTGGCATCCTTT
2663259 CAAAACCCAT
Statistics
Matches: 780, Mismatches: 129, Indels: 88
0.78 0.13 0.09
Matches are distributed among these distances:
80 32 0.04
81 98 0.13
82 238 0.31
83 207 0.27
84 45 0.06
85 75 0.10
86 71 0.09
87 6 0.01
88 4 0.01
89 4 0.01
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (81 bp):
GTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTT
TTAAGTCCACAACCCT
Found at i:2662692 original size:57 final size:57
Alignment explanation
Indices: 2662619--2662851 Score: 313
Period size: 57 Copynumber: 4.1 Consensus size: 57
2662609 GCATCCTTTT
* * * * *
2662619 AAGCCCATAAGTCAGTGGTACCCTTCCAAAGCCTACAAGTTAGTGGCACCCCTTCCA
1 AAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTTAATGGCACCCCTTTCA
* *
2662676 AAGCCCACAAGTCAGTGGCACTCTTCCAAAGCCCACAAGTTAGTGGCACCCCTTTCA
1 AAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTTAATGGCACCCCTTTCA
* * * **
2662733 AAGCTCACAAGTCAGTGGCACCTTTCTAAAGCCCACAAGTTAATGGCACCCCTTTTT
1 AAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTTAATGGCACCCCTTTCA
** * * *
2662790 AAGCCCACAAGTCAGTGGCACTTTTCCAAAGCCCACAAGTCAATGGCCCCCCCTTCA
1 AAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTTAATGGCACCCCTTTCA
2662847 AAGCC
1 AAGCC
2662852 TATAAGTTAG
Statistics
Matches: 156, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 156 1.00
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (57 bp):
AAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTTAATGGCACCCCTTTCA
Found at i:2662827 original size:114 final size:114
Alignment explanation
Indices: 2662627--2662913 Score: 353
Period size: 114 Copynumber: 2.5 Consensus size: 114
2662617 TTAAGCCCAT
* * * * ***
2662627 AAGTCAGTGGTACCCTTCCAAAGCCTACAAGTTAGTGGCACCCCTTCCAAAGCCCACAAGTCAGT
1 AAGTCAGTGGCACCTTTCTAAAGCCCACAAGTTAGTGGCACCCCTTTTTAAGCCCACAAGTCAGT
* * *
2662692 GGCACTCTTCCAAAGCCCACAAGTTAGTGGCACCCCTTTCAAAG-CTCAC
66 GGCACTCTTCCAAAGCCCACAAGTCAATGGCACCCCCTTCAAAGCCT-AC
*
2662741 AAGTCAGTGGCACCTTTCTAAAGCCCACAAGTTAATGGCACCCCTTTTTAAGCCCACAAGTCAGT
1 AAGTCAGTGGCACCTTTCTAAAGCCCACAAGTTAGTGGCACCCCTTTTTAAGCCCACAAGTCAGT
* * *
2662806 GGCACTTTTCCAAAGCCCACAAGTCAATGGCCCCCCCTTCAAAGCCTAT
66 GGCACTCTTCCAAAGCCCACAAGTCAATGGCACCCCCTTCAAAGCCTAC
* * * * * * *
2662855 AAGTTAGCGGCATCATTT-TTAAGCCCACAAGTCAGTGGCATCCTTTTTTAAGCCCACAA
1 AAGTCAGTGGCA-CCTTTCTAAAGCCCACAAGTTAGTGGCACCCCTTTTTAAGCCCACAA
2662914 CTCCATGGCA
Statistics
Matches: 149, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
114 143 0.96
115 6 0.04
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (114 bp):
AAGTCAGTGGCACCTTTCTAAAGCCCACAAGTTAGTGGCACCCCTTTTTAAGCCCACAAGTCAGT
GGCACTCTTCCAAAGCCCACAAGTCAATGGCACCCCCTTCAAAGCCTAC
Found at i:2663197 original size:110 final size:111
Alignment explanation
Indices: 2662225--2663224 Score: 587
Period size: 110 Copynumber: 9.1 Consensus size: 111
2662215 CCAAGATTTA
* * *
2662225 GTGGCATCCTTTTAAGTCCACAACTCCGTGGCA-TC-TTTT-AAGTCCATAACTTCGTGGTATCC
1 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTAAAGTCCACAACTTCGTGGCATCC
* * **
2662287 TTTTAAGTCCACAATTCCATGGCATCC-TTTTAAGTCCACAACCCC
66 TTTTAAGTCCACAACTCTATGGCATCCTTTTTAAGTCCACAATTCC
* * * * *
2662332 GTGGCATCTTTTTAAAGTCCACAACTCTGTGGCA-T-TATTTTAAAGTCCACAAC-CCTGTAGCA
1 GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACTCT-TTTTAAAGTCCACAACTTC-GTGGCA
* *
2662394 TCCTTTTAAGTCCACAACTCCATGGCATCC-TTTTAAGTCCACAACTCC
63 TCCTTTTAAGTCCACAACTCTATGGCATCCTTTTTAAGTCCACAATTCC
* * * * *
2662442 GTGGCATCTTTTTAAGTCCATAACTCCGTGGCA-TCCTTTTAAAGTCCACAAC-TCTATGGCATC
1 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTAAAGTCCACAACTTC-GTGGCATC
* *
2662505 CTTTTAAGTCCACAACT-TCGTGGCATCC-TTTTAAGTCCACAACTT-T
65 CTTTTAAGTCCACAACTCT-ATGGCATCCTTTTTAAGTCCACAA-TTCC
* * * * *
2662551 GTGGCATCCTTTTAAAATCCACAACTCTGGGGCA-TCTTTTT-AAGTCCACAACTCCGTGGCATC
1 GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACTCTTTTTAAAGTCCACAACTTCGTGGCATC
* * * * * *** *
2662614 CTTTTAAGCCCATAAGTC-AGTGGTACCCTTCCAAAG-CCTACAAGTT-A
65 CTTTTAAGTCCACAACTCTA-TGGCATCCTTTTTAAGTCC-ACAA-TTCC
** * * * ** * * *
2662661 GTGGCACCCCTTCCAAAGCCCACAAGTCAGTGGCACTC-TTCCAAAGCCCACAAGTTAGTGGCAC
1 GTGGCA-CCCTT-TTAAGTCCACAACTCCGTGGCACTCTTTTTAAAGTCCACAACTTCGTGGCA-
* * * * * *
2662725 CCCTTTCAAAG-CTCACAAGTC-AGTGGCA-CCTTTCTAAAGCCCACAAGTT-A
63 TCCTTT-TAAGTC-CACAACTCTA-TGGCATCCTTT-TTAAGTCCACAA-TTCC
* * * * ** * * *
2662775 ATGGCACCCCTTTTTAAGCCCACAAGTCAGTGGCACT-TTTCCAAAGCCCACAA-GTCAATGGCC
1 GTGGCA-CCC-TTTTAAGTCCACAACTCCGTGGCACTCTTTTTAAAGTCCACAACTTC-GTGG--
** ** * * * * * * *
2662838 CCCCCTTCAAAG-CCTATAAGT-TAGCGGCATCATTTTTAAGCCCACAAGTCA
61 CATCCTTTTAAGTCC-ACAACTCTA-TGGCATCCTTTTTAAGTCCACAATTCC
* * * * * * *
2662889 GTGGCATCCTTTTTTAAGCCCACAACTCCATGGCAC-C-CTTTAAAGTTCACAACTCCGTGGCAC
1 GTGGCA-CC-CTTTTAAGTCCACAACTCCGTGGCACTCTTTTTAAAGTCCACAACTTCGTGGCAT
* *** * * *
2662952 CCTTTAAAGTCCACAACTCCGGGGTATCC-TTTTAAGTCCACAACTCT
64 CCTTTTAAGTCCACAACTCTATGGCATCCTTTTTAAGTCCACAATTCC
* * * *
2662999 GTGGCACCCTTTAAATTCCACAACTCCGTGGCAC-CCTTTT-AAGTCCACAACTCCGTGGCACTC
1 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTAAAGTCCACAACTTCGTGGCA-TC
* * * *
2663062 TTTTTAAAGTCCTCCACT-TCGTGGCA-CCTTTTTAAGTCCACAATTCC
65 CTTTT-AAGTCCACAACTCT-ATGGCATCCTTTTTAAGTCCACAATTCC
* *
2663109 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTAAAGTCCGCCACTTCGTGGCA-CC
1 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTAAAGTCCACAACTTCGTGGCATCC
* * *
2663173 TTTTTAAGTCCATAACTCTATGGCA-CCTTTTAAAGTCCACAAGTCC
66 -TTTTAAGTCCACAACTCTATGGCATCCTTTTTAAGTCCACAATTCC
2663219 GTGGCA
1 GTGGCA
2663225 TTATTTCAAA
Statistics
Matches: 721, Mismatches: 126, Indels: 89
0.77 0.13 0.10
Matches are distributed among these distances:
107 12 0.02
108 61 0.08
109 150 0.21
110 236 0.33
111 50 0.07
112 37 0.05
113 26 0.04
114 135 0.19
115 13 0.02
116 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (111 bp):
GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTAAAGTCCACAACTTCGTGGCATCC
TTTTAAGTCCACAACTCTATGGCATCCTTTTTAAGTCCACAATTCC
Found at i:2663222 original size:137 final size:135
Alignment explanation
Indices: 2662226--2663224 Score: 696
Period size: 137 Copynumber: 7.2 Consensus size: 135
2662216 CAAGATTTAG
* * * *
2662226 TGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCTTTTAAGTCCATAACTT-CGTGGTATCCTT
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTAAGTCCACAA-TTCCGTGGCATCCTT
* * * * *
2662289 TTAAGTCCACAATTCCATGGCATCCTTTTAAGTCCACAACCCCGTGGCATCTTTTTAAAGTCCAC
65 TTAAGTCCACAACTCCGTGGCATCTTTTTAAGTCCACAACTCCGTGGCACCTTTTT-AAGTCCAC
*
2662354 AACTCTG
129 AACTCTA
*** * * *
2662361 TGGCATTATTTTAAAGTCCACAAC-CCTGTAGCATCCTTTTAAGTCCACAACTCCATGGCATCCT
1 TGGCACCCTTTTAAAGTCCACAACTCC-GTGGCA-CCTTTTAAGTCCACAATTCCGTGGCATCCT
* *
2662425 TTTAAGTCCACAACTCCGTGGCATCTTTTTAAGTCCATAACTCCGTGGCATCCTTTTAAAGTCCA
64 TTTAAGTCCACAACTCCGTGGCATCTTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTAAGTCCA
2662490 CAACTCTA
128 CAACTCTA
* * *
2662498 TGGCATCCTTTT-AAGTCCACAACTTCGTGGCATCCTTTTAAGTCCACAACTT-TGTGGCATCCT
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTAAGTCCACAA-TTCCGTGGCATCCT
* * * *
2662561 TTTAAAATCCACAACTCTGGGGCATCTTTTTAAGTCCACAACTCCGTGGCATCC-TTTTAAGCCC
64 TTT-AAGTCCACAACTCCGTGGCATCTTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTAAGTCC
* *
2662625 ATAAGTC-A
127 ACAACTCTA
* ** * ** ** * * *
2662633 GTGGTACCCTTCCAAAG-CCTACAAGTTAGTGGCACCCCTTCCAAAGCCCACAAGTCAGTGGCA-
1 -TGGCACCCTTTTAAAGTCC-ACAACTCCGTGGCA--CCTT-TTAAGTCCACAATTCCGTGGCAT
** * * ** * ** * *
2662696 CTCTTCCAAAGCCCACAAGTTAGTGGCACCCCTTTCAAAG-CTCACAAGTCAGTGGCACCTTTCT
61 C-CTT-TTAAGTCCACAACTCCGTGGCA--TCTTTTTAAGTC-CACAACTCCGTGGCACCTTT-T
* * *
2662760 AAAGCCCACAAGT-TAA
120 TAAGTCCACAACTCT-A
* * * * * * ** *
2662776 TGGCACCCCTTTTTAAGCCCACAAGTCAGTGGCA-CTTTTCCAAAGCCCACAAGTCAATGGCCCC
1 TGGCA-CCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT---AAGTCCACAATTCCGTGG--CA
* ** * * ** * * * *
2662840 CCCTTCAAAG-CCTATAAGTTAGCGGCATCATTTTTAAGCCCACAAGTCAGTGGCATCCTTTTTT
60 TCCTTTTAAGTCC-ACAACTCCGTGGCATC-TTTTTAAGTCCACAACTCCGTGGCA-CC-TTTTT
* *
2662904 AAGCCCACAACTCCA
121 AAGTCCACAACTCTA
* * * * *
2662919 TGGCACCC-TTTAAAGTTCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGGGGTATCCTT
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTAAGTCCACAATTCCGTGGCATCCTT
* * * * * *
2662983 TTAAGTCCACAACTCTGTGGCACCCTTTAAATTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
65 TTAAGTCCACAACTCCGTGGCATCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACA
**
2663048 ACTCCG
130 ACTCTA
* * * * *
2663054 TGGCACTCTTTTTAAAGTCCTCCACTTCGTGGCACCTTTTTAAGTCCACAATTCCGTGGCACCCT
1 TGGCAC-CCTTTTAAAGTCCACAACTCCGTGGCACC-TTTTAAGTCCACAATTCCGTGGCATCCT
* * *
2663119 TTTAAGTCCACAACTCCGTGGCACTCTTTTTAAAGTCCGCCACTTCGTGGCACCTTTTTAAGTCC
64 TTTAAGTCCACAACTCCGTGGCA-TCTTTTT-AAGTCCACAACTCCGTGGCACCTTTTTAAGTCC
*
2663184 ATAACTCTA
127 ACAACTCTA
*
2663193 TGGCA-CCTTTTAAAGTCCACAAGTCCGTGGCA
1 TGGCACCCTTTTAAAGTCCACAACTCCGTGGCA
2663225 TTATTTCAAA
Statistics
Matches: 686, Mismatches: 133, Indels: 88
0.76 0.15 0.10
Matches are distributed among these distances:
135 36 0.05
136 90 0.13
137 261 0.38
138 32 0.05
139 73 0.11
140 19 0.03
141 42 0.06
142 59 0.09
143 64 0.09
144 9 0.01
145 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (135 bp):
TGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTAAGTCCACAATTCCGTGGCATCCTTT
TAAGTCCACAACTCCGTGGCATCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAA
CTCTA
Found at i:2663278 original size:56 final size:56
Alignment explanation
Indices: 2663193--2663579 Score: 501
Period size: 56 Copynumber: 6.9 Consensus size: 56
2663183 CATAACTCTA
* * * * *
2663193 TGGCACC-TTTTAAAGTCCACAAGTCCGTGGCATTATTTCAAAGCCCACAAGTCAG
1 TGGCACCATTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAG
* * *
2663248 TGGCATCC-TTTCAAAACCCATAAGTCCGTGGCATCATTTCAAAGCCCATAAGTCAG
1 TGGCA-CCATTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAG
*
2663304 TGGCACCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAG
1 TGGCACCATTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAG
* * *
2663360 TGGTACCATTTCAAAGCCCACAAGTCAGTGGCATTATTTCAAAGCCCACAAGTCAG
1 TGGCACCATTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAG
* * * *
2663416 TGGCACCATTTTAAAGCCCATAACTTAGTGGCATCATTTCAAAGCCCATAAGTCAG
1 TGGCACCATTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAG
* * * *
2663472 TGGCATCATTTCAAAGCCCATAAGTCAGTGGCATCCTTTCAAAGCCCCCAAGTCTG
1 TGGCACCATTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAG
* * * *
2663528 TGGCATCATTTCAACA-CCGATAAGTCGGTGACAACTCATTTCAAAGCCCACA
1 TGGCACCATTTCAA-AGCCCATAAGTCAGTGGC-A-TCATTTCAAAGCCCACA
2663580 CAAGTCGGTG
Statistics
Matches: 295, Mismatches: 32, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
55 7 0.02
56 271 0.92
57 2 0.01
58 15 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (56 bp):
TGGCACCATTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAG
Found at i:2663589 original size:32 final size:31
Alignment explanation
Indices: 2663282--2663681 Score: 169
Period size: 28 Copynumber: 13.7 Consensus size: 31
2663272 TCCGTGGCAT
* * *
2663282 CATTTCAAAG-CC-CATAAGTCAGTGGC-AC
1 CATTTCAAAGCCCACACAAGTCGGTGACAAC
* * *
2663310 CATTTCAAAG-CC-CACAAGTCAGTGGC-AT
1 CATTTCAAAGCCCACACAAGTCGGTGACAAC
* **
2663338 CATTTCAAAG-CC-CACAAGTCAGTG-GTAC
1 CATTTCAAAGCCCACACAAGTCGGTGACAAC
* * *
2663366 CATTTCAAAG-CC-CACAAGTCAGTGGC-AT
1 CATTTCAAAGCCCACACAAGTCGGTGACAAC
* * *
2663394 TATTTCAAAG-CC-CACAAGTCAGTGGC-AC
1 CATTTCAAAGCCCACACAAGTCGGTGACAAC
* * * ** * *
2663422 CATTTTAAAG-CC-CATAACTTAGTGGC-AT
1 CATTTCAAAGCCCACACAAGTCGGTGACAAC
* * * *
2663450 CATTTCAAAG-CC-CATAAGTCAGTGGC-AT
1 CATTTCAAAGCCCACACAAGTCGGTGACAAC
* * * *
2663478 CATTTCAAAG-CC-CATAAGTCAGTGGCATC
1 CATTTCAAAGCCCACACAAGTCGGTGACAAC
* * *
2663507 C-TTTCAAAGCCC-C-CAAGTCTGTGGC-AT
1 CATTTCAAAGCCCACACAAGTCGGTGACAAC
* *
2663534 CATTTC-AA-CACC-GATAAGTCGGTGACAAC
1 CATTTCAAAGC-CCACACAAGTCGGTGACAAC
**
2663563 TCATTTCAAAGCCCACACAAGTCGGTGGTAAC
1 -CATTTCAAAGCCCACACAAGTCGGTGACAAC
**
2663595 TCATTTGC-AAGCCCACACAAGTCGGTGGTAAC
1 -CATTT-CAAAGCCCACACAAGTCGGTGACAAC
*
2663627 CTATTTCAAAGCCCACACAAGTTGGTGACAAC
1 C-ATTTCAAAGCCCACACAAGTCGGTGACAAC
2663659 CATTTTCAAAGCCCACACAAGTC
1 CA-TTTCAAAGCCCACACAAGTC
2663682 AGTGGGAACC
Statistics
Matches: 320, Mismatches: 36, Indels: 28
0.83 0.09 0.07
Matches are distributed among these distances:
26 1 0.00
27 5 0.02
28 206 0.64
29 5 0.02
30 6 0.02
31 7 0.02
32 89 0.28
33 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (31 bp):
CATTTCAAAGCCCACACAAGTCGGTGACAAC
Found at i:2663621 original size:64 final size:64
Alignment explanation
Indices: 2663549--2663681 Score: 180
Period size: 64 Copynumber: 2.1 Consensus size: 64
2663539 CAACACCGAT
**
2663549 AAGTCGGTGACAA-CTCATTTCAAAGCCCACACAAGTCGGTGGTAACTCATTTGC-AAGCCCACA
1 AAGTCGGTGACAACCT-ATTTCAAAGCCCACACAAGTCGGTGACAAC-CATTTGCAAAGCCCACA
2663612 C
64 C
** * *
2663613 AAGTCGGTGGTAACCTATTTCAAAGCCCACACAAGTTGGTGACAACCATTTTCAAAGCCCACAC
1 AAGTCGGTGACAACCTATTTCAAAGCCCACACAAGTCGGTGACAACCATTTGCAAAGCCCACAC
2663677 AAGTC
1 AAGTC
2663682 AGTGGGAACC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
63 6 0.10
64 53 0.87
65 2 0.03
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (64 bp):
AAGTCGGTGACAACCTATTTCAAAGCCCACACAAGTCGGTGACAACCATTTGCAAAGCCCACAC
Found at i:2663700 original size:32 final size:31
Alignment explanation
Indices: 2663566--2663827 Score: 188
Period size: 32 Copynumber: 8.2 Consensus size: 31
2663556 TGACAACTCA
*
2663566 TTTCAAAGCCCACACAAGTCGGTGGTAACTCAT
1 TTTCAAAGCCCACACAAGTCGGTGGGAAC-C-T
* *
2663599 TTGC-AAGCCCACACAAGTCGGTGGTAACCT
1 TTTCAAAGCCCACACAAGTCGGTGGGAACCT
* **
2663629 ATTTCAAAGCCCACACAAGTTGGTGACAACCAT
1 -TTTCAAAGCCCACACAAGTCGGTGGGAACC-T
*
2663662 TTTCAAAGCCCACACAAGTCAGTGGGAACCT
1 TTTCAAAGCCCACACAAGTCGGTGGGAACCT
* * **
2663693 TTCTCAAAGCACGCGTAAGTCGGTGGGAACCCT
1 TT-TCAAAGCCCACACAAGTCGGTGGGAA-CCT
* * * * *
2663726 TTT-AAAGCTCACACAAGTTGGTGGTATCGTT
1 TTTCAAAGCCCACACAAGTCGGTGGGAAC-CT
* ** * *
2663757 TTTCAAAAGTCCACAC-TTTCGGTGGCAACATT
1 TTTC-AAAGCCCACACAAGTCGGTGGGAAC-CT
* * * *
2663789 TTTTAAAACCCACACAAGTCAGTGGCAACCTT
1 TTTCAAAGCCCACACAAGTCGGTGGGAACC-T
2663821 TTTCAAA
1 TTTCAAA
2663828 TCACCACTTT
Statistics
Matches: 181, Mismatches: 38, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
30 2 0.01
31 37 0.20
32 124 0.69
33 18 0.10
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (31 bp):
TTTCAAAGCCCACACAAGTCGGTGGGAACCT
Found at i:2663718 original size:96 final size:95
Alignment explanation
Indices: 2663549--2663748 Score: 237
Period size: 96 Copynumber: 2.1 Consensus size: 95
2663539 CAACACCGAT
* * * *
2663549 AAGTCGGTGACAACTCATTTCAAAGCCCACACAAGTCGGTGGTAACTCATTTGCAAGCCCACACA
1 AAGTTGGTGACAACTCATTTCAAAGCCCACACAAGTCAGTGGGAACTCATTTGCAAGCACACACA
*
2663614 AGTCGGTGGTAA-CCTATTTCAAAGCCCACAC
66 AGTCGGTGGGAACCCT-TTT-AAAGCCCACAC
* *
2663645 AAGTTGGTGACAAC-CATTTTCAAAGCCCACACAAGTCAGTGGGAAC-C-TTTCTCAAAGCACGC
1 AAGTTGGTGACAACTCA-TTTCAAAGCCCACACAAGTCAGTGGGAACTCATTT-GC-AAGCACAC
** *
2663707 GTAAGTCGGTGGGAACCCTTTTAAAGCTCACAC
63 ACAAGTCGGTGGGAACCCTTTTAAAGCCCACAC
2663740 AAGTTGGTG
1 AAGTTGGTG
2663749 GTATCGTTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
94 3 0.03
95 23 0.26
96 61 0.68
97 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (95 bp):
AAGTTGGTGACAACTCATTTCAAAGCCCACACAAGTCAGTGGGAACTCATTTGCAAGCACACACA
AGTCGGTGGGAACCCTTTTAAAGCCCACAC
Found at i:2664478 original size:16 final size:17
Alignment explanation
Indices: 2664453--2664489 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
2664443 TTGGTATTTT
2664453 AAAAATAAGAGAAAGA-G
1 AAAAATAAGA-AAAGATG
2664470 AAAAA-AAGAAAAGATG
1 AAAAATAAGAAAAGATG
2664486 AAAA
1 AAAA
2664490 TATTTGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 9 0.47
17 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (17 bp):
AAAAATAAGAAAAGATG
Found at i:2666793 original size:329 final size:330
Alignment explanation
Indices: 2666180--2666843 Score: 1107
Period size: 329 Copynumber: 2.0 Consensus size: 330
2666170 GATGTCATTT
2666180 CATGTCTCTATGTTCCCCATCTCTCTAGGATGCATATGAGATTAAAATTTTTATCAAAATCTGGA
1 CATGTCTCTATGTTCCCCATCTCTCTAGGATGCATATGAGATTAAAATTTTTATCAAAATCTGGA
*
2666245 TTTATTTTTGAAAAATTTATGCATTCAAGGGGATCATATTGAACTAATATCAAGTCAAAACCAAT
66 TTTATTTTTGAAAAATTTATGCATTCAAGAGGATCATATTGAACTAATATCAAGT--------AT
*
2666310 GAAACCAATGTCAAGTCAAACACAGCTAGCAAGGTACCGATTTCGGGCGTCGCGAGGAGTTTCGT
123 GAAACCAATGTCAAGTCAAACACAGCTAGCAAGGTACCGATTTCGGGAGTCGCGAGGAGTTTCGT
* *
2666375 ACCTCTTTGCGCGTAACCAACTCCCGAACTCAATCGACAAATCTTTGAAGTATGTAGACCACGGG
188 AACTCTTTGCGCGTAACCAACTCCCGAACTCAATCGACAAATCTTTGAAGTATATAGACCACGGG
2666440 ATCGATGTCTCGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATTATGCCTAACCC
253 ATCGATGTCTCGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATTATGCCTAACCC
2666505 GAAATGATCAGTG
318 GAAATGATCAGTG
* *
2666518 CATGTCTCTATGTTCCCTATCTCTCTGGGATGCATATGAGATTAAAATTTTTATCAAAATCTGGA
1 CATGTCTCTATGTTCCCCATCTCTCTAGGATGCATATGAGATTAAAATTTTTATCAAAATCTGGA
2666583 TTTATTTTTGAAAAATTTATGCATTCAAGAGGATCATATTGAACTAATATCAAGT-TGAAACCAA
66 TTTATTTTTGAAAAATTTATGCATTCAAGAGGATCATATTGAACTAATATCAAGTATGAAACCAA
* *
2666647 TGTCAAGTCAAACATAGCTAGCAAGGTACCGATTTTGGGAGTCGCGAGGAGGTTT-GTAACTCTT
131 TGTCAAGTCAAACACAGCTAGCAAGGTACCGATTTCGGGAGTCGCGAGGA-GTTTCGTAACTCTT
*
2666711 TGCGCGTAACCAACTCTCGAACTCAATCGACAAATCTTTGAAGTATATAGACCACGGGATCGATG
195 TGCGCGTAACCAACTCCCGAACTCAATCGACAAATCTTTGAAGTATATAGACCACGGGATCGATG
* * * * *
2666776 TCTTGAGTTTTGTAACTCAAGACATAGGTTTCAATAGGCTTTCGATTATGCCTAGCCCGAAATGA
260 TCTCGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATTATGCCTAACCCGAAATGA
2666841 TCA
325 TCA
2666844 ATGGCGACTC
Statistics
Matches: 311, Mismatches: 14, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
329 190 0.61
330 4 0.01
338 117 0.38
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (330 bp):
CATGTCTCTATGTTCCCCATCTCTCTAGGATGCATATGAGATTAAAATTTTTATCAAAATCTGGA
TTTATTTTTGAAAAATTTATGCATTCAAGAGGATCATATTGAACTAATATCAAGTATGAAACCAA
TGTCAAGTCAAACACAGCTAGCAAGGTACCGATTTCGGGAGTCGCGAGGAGTTTCGTAACTCTTT
GCGCGTAACCAACTCCCGAACTCAATCGACAAATCTTTGAAGTATATAGACCACGGGATCGATGT
CTCGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATTATGCCTAACCCGAAATGAT
CAGTG
Found at i:2671600 original size:18 final size:19
Alignment explanation
Indices: 2671566--2671605 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
2671556 TTAAACTATC
*
2671566 AATCATATAATATATATAA
1 AATCATATAAAATATATAA
2671585 AATCATA-AAAATATATAA
1 AATCATATAAAATATATAA
2671603 AAT
1 AAT
2671606 TAATTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AATCATATAAAATATATAA
Found at i:2672388 original size:20 final size:20
Alignment explanation
Indices: 2672363--2672404 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
2672353 TCTATTGTGA
*
2672363 AAAATCTATTTATTCCCTAG
1 AAAATCTAGTTATTCCCTAG
2672383 AAAATCTAGTTATTCCCTAG
1 AAAATCTAGTTATTCCCTAG
2672403 AA
1 AA
2672405 TTTCTTCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (20 bp):
AAAATCTAGTTATTCCCTAG
Found at i:2673100 original size:36 final size:35
Alignment explanation
Indices: 2673053--2673124 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 35
2673043 ATTGCGACAG
2673053 TCGCCAATTGAAACTACTACATACATTTGGACGAGT
1 TCGCCAATTGAAACTACTACATACA-TTGGACGAGT
*
2673089 TCGCCAATTGAAACTACTACATATATTGGACGAGT
1 TCGCCAATTGAAACTACTACATACATTGGACGAGT
2673124 T
1 T
2673125 TTATCGATCC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 11 0.31
36 24 0.69
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (35 bp):
TCGCCAATTGAAACTACTACATACATTGGACGAGT
Found at i:2677852 original size:35 final size:35
Alignment explanation
Indices: 2677803--2677879 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
2677793 TGGTTAATTA
2677803 AAATTATATCGTAAATTTATCATTTATGAATAGTT
1 AAATTATATCGTAAATTTATCATTTATGAATAGTT
*
2677838 AAATTATATTGTAAATTTATCATTTATGAATAGTT
1 AAATTATATCGTAAATTTATCATTTATGAATAGTT
2677873 AAATTAT
1 AAATTAT
2677880 CATAAAATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.47
Consensus pattern (35 bp):
AAATTATATCGTAAATTTATCATTTATGAATAGTT
Found at i:2678139 original size:23 final size:23
Alignment explanation
Indices: 2678113--2678158 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2678103 ATATTAAAAT
2678113 ATATATAATTAATGTTATAACAA
1 ATATATAATTAATGTTATAACAA
2678136 ATATATAATTAATGTTATAACAA
1 ATATATAATTAATGTTATAACAA
2678159 TTATGAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (23 bp):
ATATATAATTAATGTTATAACAA
Found at i:2679370 original size:20 final size:20
Alignment explanation
Indices: 2679347--2679398 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 20
2679337 TAATAGGAAT
2679347 ATAATATTATATTTAAAAAA
1 ATAATATTATATTTAAAAAA
** * *
2679367 AT-A-ATTATACATACAAAT
1 ATAATATTATATTTAAAAAA
2679385 ATAATATTATATTT
1 ATAATATTATATTT
2679399 TAAGAGAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
18 13 0.54
19 2 0.08
20 9 0.38
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAATATTATATTTAAAAAA
Found at i:2683083 original size:20 final size:19
Alignment explanation
Indices: 2683058--2683102 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2683048 CACATAAATT
2683058 TAATTTAGATTCATATTAAA
1 TAATTTAGATTCAT-TTAAA
** *
2683078 TAATTTTTATTTATTTAAA
1 TAATTTAGATTCATTTAAA
2683097 TAATTT
1 TAATTT
2683103 TTTGTGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TAATTTAGATTCATTTAAA
Found at i:2690654 original size:33 final size:33
Alignment explanation
Indices: 2690617--2690683 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2690607 TTCAACGATT
2690617 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2690650 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2690683 T
1 T
2690684 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2690655 original size:13 final size:13
Alignment explanation
Indices: 2690637--2690661 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2690627 CATAAAATGT
2690637 TGTATCGATACAA
1 TGTATCGATACAA
2690650 TGTATCGATACA
1 TGTATCGATACA
2690662 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2690744 original size:13 final size:13
Alignment explanation
Indices: 2690726--2690750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2690716 ATTACTCACA
2690726 TGTATCGATACAT
1 TGTATCGATACAT
2690739 TGTATCGATACA
1 TGTATCGATACA
2690751 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2690815 original size:52 final size:52
Alignment explanation
Indices: 2690759--2690878 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
2690749 CACTGATCTT
*
2690759 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
2690811 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
2690863 TGTATCGATACATGCA
1 TGTATCGATACATGCA
2690879 AGCAACTTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2698201 original size:11 final size:12
Alignment explanation
Indices: 2698178--2698219 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
2698168 AACACAACAT
*
2698178 ATATAAAAGATA
1 ATATAAAATATA
2698190 AT-TAAAATATA
1 ATATAAAATATA
*
2698201 ATATGAAATATA
1 ATATAAAATATA
2698213 ATATAAA
1 ATATAAA
2698220 TATGAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (12 bp):
ATATAAAATATA
Found at i:2698223 original size:18 final size:18
Alignment explanation
Indices: 2698195--2698232 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
2698185 AGATAATTAA
2698195 AATATAATATGAAAT-AT
1 AATATAATATGAAATGAT
2698212 AATATAAATATGAAATGAT
1 AATAT-AATATGAAATGAT
2698231 AA
1 AA
2698233 ACATGAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AATATAATATGAAATGAT
Found at i:2698539 original size:12 final size:11
Alignment explanation
Indices: 2698517--2698632 Score: 57
Period size: 11 Copynumber: 10.4 Consensus size: 11
2698507 AAATTTTTCC
2698517 CTTTTTTCTTT
1 CTTTTTTCTTT
2698528 CTTTTTTGC-TT
1 CTTTTTT-CTTT
*
2698539 -TTTATTCTTTT
1 CTTTTTTC-TTT
*
2698550 CCTTTTTC--T
1 CTTTTTTCTTT
2698559 CTTTTTTCTTT
1 CTTTTTTCTTT
*
2698570 -TTTTTTCTCT
1 CTTTTTTCTTT
2698580 CATTTCTTTATCTTT
1 C--TT-TTT-TCTTT
*
2698595 -TTTTGTT-TTG
1 CTTTT-TTCTTT
2698605 CTTTGTTTCTTT
1 CTTT-TTTCTTT
*
2698617 TTCTTTTTCTTT
1 CT-TTTTTCTTT
2698629 CTTT
1 CTTT
2698633 CTCCTTTCCT
Statistics
Matches: 79, Mismatches: 10, Indels: 32
0.65 0.08 0.26
Matches are distributed among these distances:
9 9 0.11
10 16 0.20
11 22 0.28
12 21 0.27
13 4 0.05
14 3 0.04
15 4 0.05
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (11 bp):
CTTTTTTCTTT
Found at i:2698546 original size:21 final size:20
Alignment explanation
Indices: 2698510--2698632 Score: 85
Period size: 20 Copynumber: 6.1 Consensus size: 20
2698500 CCAATCAAAA
*
2698510 TTTTTCCCTTTTTTCTTTCT
1 TTTTTCTCTTTTTTCTTTCT
*
2698530 TTTTTGCT-TTTTATTCTTTTCC
1 TTTTT-CTCTTTT-TTC-TTTCT
2698552 TTTTTCTCTTTTTTCTTT-T
1 TTTTTCTCTTTTTTCTTTCT
**
2698571 TTTTTCTCTCATTTCTTTATCT
1 TTTTTCTCTTTTTTC-TT-TCT
* * *
2698593 TTTTT-T-GTTTTGCTTTGT
1 TTTTTCTCTTTTTTCTTTCT
*
2698611 TTCTTTTTC-TTTTTCTTTCT
1 TT-TTTCTCTTTTTTCTTTCT
2698631 TT
1 TT
2698633 CTCCTTTCCT
Statistics
Matches: 81, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
18 4 0.05
19 18 0.22
20 29 0.36
21 11 0.14
22 19 0.23
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTTCTCTTTTTTCTTTCT
Found at i:2698555 original size:34 final size:32
Alignment explanation
Indices: 2698511--2698628 Score: 84
Period size: 34 Copynumber: 3.5 Consensus size: 32
2698501 CAATCAAAAT
2698511 TTTTCCCTTTTTTCTTTCTTTTTTGCTTTTTATTC
1 TTTT-CCTTTTTTCTTT-TTTTTTGCTTTTT-TTC
2698546 TTTTCCTTTTTCTCTTTTTTCTTT--TTTTTTCTC
1 TTTTCCTTTTT-TCTTTTTT-TTTGCTTTTTT-TC
*
2698579 TCATTT-CTTTATCTT-TTTTTGTTTTGCTTTGTTTC
1 T--TTTCCTTT-T-TTCTTTTT-TTTTGCTTTTTTTC
*
2698614 TTTTTC-TTTTTCTTT
1 TTTTCCTTTTTTCTTT
2698629 CTTTCTCCTT
Statistics
Matches: 70, Mismatches: 1, Indels: 27
0.71 0.01 0.28
Matches are distributed among these distances:
31 2 0.03
32 5 0.07
33 13 0.19
34 23 0.33
35 21 0.30
36 6 0.09
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (32 bp):
TTTTCCTTTTTTCTTTTTTTTTGCTTTTTTTC
Found at i:2698564 original size:15 final size:14
Alignment explanation
Indices: 2698525--2698575 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
2698515 CCCTTTTTTC
*
2698525 TTTCTTTTTTGCTT
1 TTTCTTTTTTCCTT
*
2698539 TTTATTCTTTTCCTT
1 TTTCTT-TTTTCCTT
*
2698554 TTTCTCTTTTTTCTT
1 TTTCT-TTTTTCCTT
2698569 TTT-TTTT
1 TTTCTTTT
2698576 CTCTCATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 3 0.10
14 6 0.19
15 21 0.68
16 1 0.03
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTCTTTTTTCCTT
Found at i:2698585 original size:19 final size:19
Alignment explanation
Indices: 2698552--2698588 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2698542 ATTCTTTTCC
**
2698552 TTTTTCTCTTTTTTCTTTT
1 TTTTTCTCTCATTTCTTTT
2698571 TTTTTCTCTCATTTCTTT
1 TTTTTCTCTCATTTCTTT
2698589 ATCTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTCTCTCATTTCTTTT
Found at i:2698598 original size:28 final size:28
Alignment explanation
Indices: 2698567--2698635 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
2698557 CTCTTTTTTC
2698567 TTTTTTTTTCTCTCATTTCTTTATCTTT
1 TTTTTTTTTCTCTCATTTCTTTATCTTT
* ** *
2698595 TTTTGTTTTGCT-TTGTTTCTTTTTCTTT
1 TTTT-TTTTTCTCTCATTTCTTTATCTTT
*
2698623 TTCTTTCTTTCTC
1 TT-TTTTTTTCTC
2698636 CTTTCCTTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.03, C:0.17, G:0.04, T:0.75
Consensus pattern (28 bp):
TTTTTTTTTCTCTCATTTCTTTATCTTT
Found at i:2698598 original size:42 final size:42
Alignment explanation
Indices: 2698510--2698597 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
2698500 CCAATCAAAA
**
2698510 TTTTTCCCTTTTTTCTTTCTTTTTTGCTTTTTATTCTTTTCC
1 TTTTTCCCTTTTTTCTTTCTTTTTTGCTTCATATTCTTTTCC
* *
2698552 TTTTTCTCTTTTTTCTTT-TTTTTT-CTCTCAT-TTCTTTATCT
1 TTTTTCCCTTTTTTCTTTCTTTTTTGCT-TCATATTCTTT-TCC
2698593 TTTTT
1 TTTTT
2698598 TGTTTTGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 8 0.20
41 15 0.38
42 17 0.43
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.76
Consensus pattern (42 bp):
TTTTTCCCTTTTTTCTTTCTTTTTTGCTTCATATTCTTTTCC
Found at i:2698753 original size:17 final size:17
Alignment explanation
Indices: 2698733--2698775 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2698723 TTATATGTTA
2698733 TATTTTTTATTTTTT-CC
1 TATTTTTT-TTTTTTACC
*
2698750 TATTTTTCTTTTTTTATC
1 TATTTTT-TTTTTTTACC
2698768 TATTTTTT
1 TATTTTTT
2698776 CGTTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (17 bp):
TATTTTTTTTTTTTACC
Found at i:2698763 original size:18 final size:17
Alignment explanation
Indices: 2698733--2698775 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
2698723 TTATATGTTA
2698733 TATTTTTTATTTTT-TCC
1 TATTTTTTATTTTTAT-C
*
2698750 TATTTTTCTTTTTTTATC
1 TATTTTT-TATTTTTATC
2698768 TATTTTTT
1 TATTTTTT
2698776 CGTTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 14 0.61
19 1 0.04
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (17 bp):
TATTTTTTATTTTTATC
Found at i:2699196 original size:43 final size:43
Alignment explanation
Indices: 2699111--2699221 Score: 114
Period size: 43 Copynumber: 2.5 Consensus size: 43
2699101 ACCCATAAGG
*
2699111 GAGAGAACAAATCATAGAAAATAATCAGCAACTTTCACAAGACCA
1 GAGAGAGCAAATCA-A-AAAATAATCAGCAACTTTCACAAGACCA
* ** * **
2699156 TAGAGAGCAAATCAAAAAATAATTGGCAATTTTCTTAAGACCA
1 GAGAGAGCAAATCAAAAAATAATCAGCAACTTTCACAAGACCA
* * *
2699199 GAGATAGTAAATCAAAAAGTAAT
1 GAGAGAGCAAATCAAAAAATAAT
2699222 AGAAAGCACA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 42 0.76
44 1 0.02
45 12 0.22
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (43 bp):
GAGAGAGCAAATCAAAAAATAATCAGCAACTTTCACAAGACCA
Found at i:2702747 original size:26 final size:26
Alignment explanation
Indices: 2702716--2702791 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
2702706 TTTATAGAGA
* * *
2702716 TAGGATTGATAAAGTTTGACTTTACT
1 TAGGATTAATAAAGTTCGACTTTACC
*
2702742 TGGGATTAATAAAGTTCGACTTTACC
1 TAGGATTAATAAAGTTCGACTTTACC
*
2702768 TAGGATTAATAAAGTTCAACTTTA
1 TAGGATTAATAAAGTTCGACTTTA
2702792 TTTGAGATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (26 bp):
TAGGATTAATAAAGTTCGACTTTACC
Found at i:2702800 original size:26 final size:26
Alignment explanation
Indices: 2702719--2702824 Score: 97
Period size: 26 Copynumber: 4.1 Consensus size: 26
2702709 ATAGAGATAG
* ** * *
2702719 GATTGATAAAGTTTGACTTTACTTGG
1 GATTAATAAAGTTCAACTTTACCTGA
*
2702745 GATTAATAAAGTTCGACTTTACCT-A
1 GATTAATAAAGTTCAACTTTACCTGA
**
2702770 GGATTAATAAAGTTCAACTTTATTTGA
1 -GATTAATAAAGTTCAACTTTACCTGA
* * *
2702797 GATTAATTAAGTTAAACTTTATCTGA
1 GATTAATAAAGTTCAACTTTACCTGA
2702823 GA
1 GA
2702825 CTCTAGATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 67 0.99
27 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (26 bp):
GATTAATAAAGTTCAACTTTACCTGA
Found at i:2702816 original size:52 final size:52
Alignment explanation
Indices: 2702716--2702817 Score: 132
Period size: 52 Copynumber: 2.0 Consensus size: 52
2702706 TTTATAGAGA
* ** * **
2702716 TAGGATTGATAAAGTTTGACTTTACTTGGGATTAATAAAGTTCGACTTTACC
1 TAGGATTAATAAAGTTCAACTTTACTTGAGATTAATAAAGTTAAACTTTACC
* *
2702768 TAGGATTAATAAAGTTCAACTTTATTTGAGATTAATTAAGTTAAACTTTA
1 TAGGATTAATAAAGTTCAACTTTACTTGAGATTAATAAAGTTAAACTTTA
2702818 TCTGAGACTC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (52 bp):
TAGGATTAATAAAGTTCAACTTTACTTGAGATTAATAAAGTTAAACTTTACC
Found at i:2704156 original size:22 final size:24
Alignment explanation
Indices: 2704110--2704156 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2704100 CAATTAAGCT
*
2704110 GCTGCAATTAAAAGCAATGAAACA
1 GCTGCAATGAAAAGCAATGAAACA
*
2704134 GCTGCAATGAAGAG-AA-GAAACA
1 GCTGCAATGAAAAGCAATGAAACA
2704156 G
1 G
2704157 TAGCTGAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 2 0.10
24 12 0.57
ACGTcount: A:0.49, C:0.15, G:0.23, T:0.13
Consensus pattern (24 bp):
GCTGCAATGAAAAGCAATGAAACA
Found at i:2704404 original size:26 final size:27
Alignment explanation
Indices: 2704375--2704433 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
2704365 CAAATGGGAG
*
2704375 AAGAGAGG-AATCAAAACAAG-AAAGAA
1 AAGAAAGGTAATCAAAAC-AGCAAAGAA
**
2704401 AAGAAAGGTAATTGAAACAGCAAAGAA
1 AAGAAAGGTAATCAAAACAGCAAAGAA
2704428 AAGAAA
1 AAGAAA
2704434 AAGAGAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.64, C:0.07, G:0.22, T:0.07
Consensus pattern (27 bp):
AAGAAAGGTAATCAAAACAGCAAAGAA
Found at i:2704578 original size:22 final size:22
Alignment explanation
Indices: 2704550--2704591 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2704540 GACACTAGCA
2704550 ACAACAACAACAGCAACCAATG
1 ACAACAACAACAGCAACCAATG
*
2704572 ACAACAACAATAGCAACCAA
1 ACAACAACAACAGCAACCAA
2704592 CACTAGCAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.31, G:0.07, T:0.05
Consensus pattern (22 bp):
ACAACAACAACAGCAACCAATG
Found at i:2704613 original size:15 final size:13
Alignment explanation
Indices: 2704576--2704620 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
2704566 CCAATGACAA
2704576 CAACAATAGCAAC
1 CAACAATAGCAAC
* *
2704589 CAACACTAGCAGTAG
1 CAACAATAGCA--AC
2704604 CAACAATAGCAAC
1 CAACAATAGCAAC
2704617 CAAC
1 CAAC
2704621 GACAACAGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 15 0.58
15 11 0.42
ACGTcount: A:0.49, C:0.31, G:0.11, T:0.09
Consensus pattern (13 bp):
CAACAATAGCAAC
Found at i:2711279 original size:22 final size:22
Alignment explanation
Indices: 2711253--2711294 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2711243 TTCAAGCATA
*
2711253 GCTTGGACTTGATAAATGTTAT
1 GCTTGAACTTGATAAATGTTAT
2711275 GCTTGAACTTGATAAATGTT
1 GCTTGAACTTGATAAATGTT
2711295 CGCATAGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (22 bp):
GCTTGAACTTGATAAATGTTAT
Found at i:2718373 original size:21 final size:20
Alignment explanation
Indices: 2718340--2718380 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
2718330 GAGGTGTTGG
*
2718340 ACATACTAAAAATGGATGAA
1 ACATACTAAAAATGCATGAA
*
2718360 ACATAGCTCAAAATGCATGAA
1 ACATA-CTAAAAATGCATGAA
2718381 CATGGGCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.20
Consensus pattern (20 bp):
ACATACTAAAAATGCATGAA
Found at i:2719456 original size:21 final size:20
Alignment explanation
Indices: 2719432--2719483 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 20
2719422 GTTGGGACCT
2719432 TGTATCGATACATTGTAGAAA
1 TGTAT-GATACATTGTAGAAA
2719453 TG--T-ATACATTGTAGAAA
1 TGTATGATACATTGTAGAAA
2719470 TGTATTGATACATT
1 TGTA-TGATACATT
2719484 AAAACAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 16 0.59
19 1 0.04
20 1 0.04
21 9 0.33
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTATGATACATTGTAGAAA
Found at i:2719461 original size:17 final size:17
Alignment explanation
Indices: 2719439--2719474 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2719429 CCTTGTATCG
2719439 ATACATTGTAGAAATGT
1 ATACATTGTAGAAATGT
2719456 ATACATTGTAGAAATGT
1 ATACATTGTAGAAATGT
2719473 AT
1 AT
2719475 TGATACATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.36
Consensus pattern (17 bp):
ATACATTGTAGAAATGT
Found at i:2722237 original size:19 final size:19
Alignment explanation
Indices: 2722213--2722280 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2722203 AATTCAACAA
2722213 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2722232 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2722247 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2722264 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2722281 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2722252 original size:13 final size:13
Alignment explanation
Indices: 2722234--2722258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2722224 ACATAAGTTT
2722234 TGTATCGATACAA
1 TGTATCGATACAA
2722247 TGTATCGATACA
1 TGTATCGATACA
2722259 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2722256 original size:32 final size:32
Alignment explanation
Indices: 2722215--2722277 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2722205 TTCAACAATT
*
2722215 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2722247 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2722278 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2722338 original size:13 final size:13
Alignment explanation
Indices: 2722320--2722345 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2722310 CATTTTTCTG
2722320 TGTATCGATACAT
1 TGTATCGATACAT
2722333 TGTATCGATACAT
1 TGTATCGATACAT
2722346 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2722342 original size:33 final size:33
Alignment explanation
Indices: 2722300--2722366 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2722290 GCCAAGGAAA
***
2722300 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2722333 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2722366 T
1 T
2722367 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Done.