Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 111 of 770
Found at i:31875063 original size:24 final size:24
Alignment explanation
Indices: 31875021--31875119 Score: 71
Period size: 24 Copynumber: 4.1 Consensus size: 24
31875011 AGCTTCGTAA
*
31875021 TTAATGGCTCT-CTAAAGCTTCCCG
1 TTAATGGCTCTAC-AGAGCTTCCCG
* *
31875045 TTAATGGCTCTACAGAGCTACCTG
1 TTAATGGCTCTACAGAGCTTCCCG
* * *
31875069 TTATTGGCT-TGCATGAGCTTCCTG
1 TTAATGGCTCTACA-GAGCTTCCCG
*
31875093 ATT-ATGGCTCTTA-TGAGCTTCCCG
1 -TTAATGGCTC-TACAGAGCTTCCCG
31875117 TTA
1 TTA
31875120 TACAGCCCAG
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
23 5 0.08
24 50 0.85
25 3 0.05
26 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (24 bp):
TTAATGGCTCTACAGAGCTTCCCG
Found at i:31875174 original size:25 final size:25
Alignment explanation
Indices: 31875036--31875176 Score: 101
Period size: 24 Copynumber: 5.8 Consensus size: 25
31875026 GGCTCTCTAA
*
31875036 AGCTTCCCGTTA-ATGGCTCTACA-G
1 AGCTTCCTGTTATATGGCTC-ACATG
* **
31875060 AGCTACCTGTTAT-TGGCTTGCATG
1 AGCTTCCTGTTATATGGCTCACATG
* **
31875084 AGCTTCCTGAT-TATGGCTCTTATG
1 AGCTTCCTGTTATATGGCTCACATG
* ** * * *
31875108 AGCTTCCCGTTATACAGCCCAGATA
1 AGCTTCCTGTTATATGGCTCACATG
* *
31875133 AGCTTCCCGTTACATGGCTCACATG
1 AGCTTCCTGTTATATGGCTCACATG
*
31875158 AGCTTCCTATTATATGGCT
1 AGCTTCCTGTTATATGGCT
31875177 TGAGAGAGTG
Statistics
Matches: 87, Mismatches: 26, Indels: 7
0.73 0.22 0.06
Matches are distributed among these distances:
23 3 0.03
24 42 0.48
25 42 0.48
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (25 bp):
AGCTTCCTGTTATATGGCTCACATG
Found at i:31877206 original size:28 final size:28
Alignment explanation
Indices: 31877166--31877235 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
31877156 GCAATCAAAT
*
31877166 ATGGCACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
** *
31877194 ATGGCACTTAGTGTGTGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
31877222 ACGACACTTAGTGT
1 ATGGCACTTAGTGT
31877236 GCAAAAAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:31879581 original size:47 final size:47
Alignment explanation
Indices: 31879476--31880013 Score: 772
Period size: 47 Copynumber: 11.4 Consensus size: 47
31879466 CCCTTCGGGA
* * * *
31879476 CTTATCACATTTATACACTTTCACATCCATCACAT-TGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31879522 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31879569 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31879616 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31879663 CTTATCACATATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA--CACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31879712 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31879759 CTTATCACACATATATGCACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
31879808 CTTATCATATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31879855 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31879902 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
31879949 CTTATCACATATACGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31879996 CTTATCACATATACACAC
1 CTTATCACATATATACAC
31880014 CTTGTACATC
Statistics
Matches: 446, Mismatches: 41, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
46 33 0.07
47 327 0.73
49 86 0.19
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31879861 original size:22 final size:22
Alignment explanation
Indices: 31879836--31879958 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
31879826 TTTCACATTC
31879836 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
31879858 ATCACATATATGCACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
* *
31879882 CATCACATCGGCCATTAGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
31879905 ATCACATAT-ACACACTTTC-ACATT
1 ATCACAT-TGGC-CA--TTCGGCCTT
31879929 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
31879952 ATCACAT
1 ATCACAT
31879959 ATACGCACTT
Statistics
Matches: 71, Mismatches: 18, Indels: 24
0.63 0.16 0.21
Matches are distributed among these distances:
22 28 0.39
23 11 0.15
24 11 0.15
25 21 0.30
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:31885390 original size:27 final size:27
Alignment explanation
Indices: 31885352--31885409 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
31885342 GTTAGATCAA
31885352 GAAAACTGAGATTCGGGCTTAAATCGG
1 GAAAACTGAGATTCGGGCTTAAATCGG
*
31885379 GAAAACTGAGATTTGGGCTTAAATCGG
1 GAAAACTGAGATTCGGGCTTAAATCGG
31885406 GAAA
1 GAAA
31885410 GTTCGAGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.22
Consensus pattern (27 bp):
GAAAACTGAGATTCGGGCTTAAATCGG
Found at i:31888565 original size:23 final size:24
Alignment explanation
Indices: 31888533--31888673 Score: 100
Period size: 23 Copynumber: 6.0 Consensus size: 24
31888523 CTGAGCTAAT
*
31888533 AAACAATAAGCT-TTATTGAGCTG
1 AAACAGTAAGCTCTTATTGAGCTG
* *
31888556 AAACAGTAAGCTCTT-TCGAGTTG
1 AAACAGTAAGCTCTTATTGAGCTG
*
31888579 -AATAGTAAGCTC--ATTCGAGCTG
1 AAACAGTAAGCTCTTATT-GAGCTG
** **
31888601 AAATGGTAAGCTCCAATT-AGCTG
1 AAACAGTAAGCTCTTATTGAGCTG
31888624 AAAACAGTAAGCTCTT-TTGAGCTG
1 -AAACAGTAAGCTCTTATTGAGCTG
*
31888648 ATATATCAGTAAGCTCATA-TGAGCTG
1 A-A-A-CAGTAAGCTCTTATTGAGCTG
31888674 TGGTGAGTCC
Statistics
Matches: 94, Mismatches: 12, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
21 1 0.01
22 16 0.17
23 36 0.38
24 19 0.20
25 4 0.04
26 18 0.19
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (24 bp):
AAACAGTAAGCTCTTATTGAGCTG
Found at i:31892504 original size:25 final size:25
Alignment explanation
Indices: 31892476--31892523 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31892466 TTATACCATG
* * *
31892476 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
31892501 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
31892524 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:31892626 original size:20 final size:20
Alignment explanation
Indices: 31892566--31892626 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
31892556 ATAAATATGG
*
31892566 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
31892586 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
31892606 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
31892626 T
1 T
31892627 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:31892706 original size:23 final size:24
Alignment explanation
Indices: 31892676--31892817 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
31892666 GAGGAAGTGA
31892676 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
31892699 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
31892723 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
31892746 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
31892770 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
31892794 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
31892818 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
23 36 0.33
24 63 0.57
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:31892750 original size:47 final size:47
Alignment explanation
Indices: 31892676--31892817 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
31892666 GAGGAAGTGA
31892676 AAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
31892723 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
31892770 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
31892818 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
47 56 0.64
48 20 0.23
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:31893069 original size:30 final size:30
Alignment explanation
Indices: 31893009--31893071 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
31892999 CGTTTACAGT
31893009 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGT-ATATGAAATATGA
*
31893040 AAAGGCTTCGGCCCATGT-TATGGAATATGA
1 AAAGGCTTCGGCCCA-GTATATGAAATATGA
31893070 AA
1 AA
31893072 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 13 0.43
31 15 0.50
32 2 0.07
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGAAATATGA
Found at i:31897634 original size:40 final size:39
Alignment explanation
Indices: 31897470--31897652 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
31897460 AAATTGAATG
* * *
31897470 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
31897510 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
31897550 ACATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
31897589 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
31897628 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
31897653 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 26, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 34 0.31
40 71 0.64
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:31903926 original size:25 final size:25
Alignment explanation
Indices: 31903898--31903945 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31903888 TTATACCATG
* * *
31903898 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
31903923 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
31903946 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:31904048 original size:20 final size:20
Alignment explanation
Indices: 31903988--31904048 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
31903978 ATAAATATGG
*
31903988 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
31904008 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
31904028 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
31904048 T
1 T
31904049 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:31904128 original size:23 final size:24
Alignment explanation
Indices: 31904098--31904239 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
31904088 GAGGAAGTGA
31904098 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
31904121 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
31904145 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
31904168 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
31904192 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
31904216 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
31904240 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
23 36 0.33
24 63 0.57
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:31904172 original size:47 final size:47
Alignment explanation
Indices: 31904098--31904239 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
31904088 GAGGAAGTGA
31904098 AAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
31904145 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
31904192 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
31904240 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
47 56 0.64
48 20 0.23
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:31904466 original size:31 final size:29
Alignment explanation
Indices: 31904431--31904492 Score: 97
Period size: 31 Copynumber: 2.1 Consensus size: 29
31904421 CGTTTACAGT
31904431 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGT-ATATG-AATATGA
*
31904462 AAAGGCTTCGGCCCAGTTTATGAATATGA
1 AAAGGCTTCGGCCCAGTATATGAATATGA
31904491 AA
1 AA
31904493 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 9 0.30
30 4 0.13
31 17 0.57
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (29 bp):
AAAGGCTTCGGCCCAGTATATGAATATGA
Found at i:31904498 original size:36 final size:37
Alignment explanation
Indices: 31904448--31904520 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 37
31904438 TCGGCCCAGT
* *
31904448 AATATGAAATATGAAAA-GGCT-TCGGCCCAGTTTATG
1 AATATGAAACATGAAAAGGGCTAT-GGCCCAGTATATG
31904484 AATATGAAACATGAAAAGGGCTATGGCCCAGTATATG
1 AATATGAAACATGAAAAGGGCTATGGCCCAGTATATG
31904521 TGAGATTGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 16 0.48
37 16 0.48
38 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (37 bp):
AATATGAAACATGAAAAGGGCTATGGCCCAGTATATG
Found at i:31909034 original size:15 final size:15
Alignment explanation
Indices: 31909010--31909094 Score: 66
Period size: 15 Copynumber: 5.7 Consensus size: 15
31909000 TAAAAATACC
* *
31909010 AGAAAACCAAGATAG
1 AGAAATCCAAGATAA
**
31909025 AGAAATCCAAGACGA
1 AGAAATCCAAGATAA
*
31909040 TGAAGA-CC-AGAATAA
1 AGAA-ATCCAAG-ATAA
*
31909055 ATAAATCCAAGATAA
1 AGAAATCCAAGATAA
* *
31909070 AGAAATCCATGGTAA
1 AGAAATCCAAGATAA
31909085 AGAAATCCAA
1 AGAAATCCAA
31909095 ATTATAATAC
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
14 3 0.06
15 47 0.89
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.16, T:0.13
Consensus pattern (15 bp):
AGAAATCCAAGATAA
Found at i:31912304 original size:49 final size:49
Alignment explanation
Indices: 31912235--31912485 Score: 475
Period size: 49 Copynumber: 5.1 Consensus size: 49
31912225 GTACATAATA
31912235 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
31912284 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
31912333 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
31912382 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
31912431 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
31912480 ATATAT
1 ATATAT
31912486 ATGTGGTAAA
Statistics
Matches: 198, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 198 1.00
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:31912609 original size:37 final size:36
Alignment explanation
Indices: 31912554--31912640 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
31912544 AACTTAGAAA
31912554 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
31912592 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
*
31912629 TATGTCTGGGTA
1 TATGTCCGGGTA
31912641 AGACTTCGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:31915412 original size:40 final size:40
Alignment explanation
Indices: 31915346--31915512 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
31915336 AAATTGAATG
* * *
31915346 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
31915385 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
31915425 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
31915465 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
31915505 ATATCCGG
1 ATATCCGG
31915513 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:31923419 original size:40 final size:40
Alignment explanation
Indices: 31923353--31923519 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
31923343 AAATTGAATG
* * *
31923353 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
31923392 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
31923432 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
31923472 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
31923512 ATATCCGG
1 ATATCCGG
31923520 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:31935524 original size:22 final size:23
Alignment explanation
Indices: 31935479--31935538 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
31935469 TCCATTGAGT
* * *
31935479 TGAAACAGTATGCTCTTTCAAGC
1 TGAAACAGTAAGCTCATACAAGC
*
31935502 T-AAACAGTAAGCTCATACGAGC
1 TGAAACAGTAAGCTCATACAAGC
**
31935524 TGAAATGGTAAGCTC
1 TGAAACAGTAAGCTC
31935539 CAATGAACTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (23 bp):
TGAAACAGTAAGCTCATACAAGC
Found at i:31938131 original size:42 final size:41
Alignment explanation
Indices: 31938084--31938240 Score: 147
Period size: 42 Copynumber: 3.7 Consensus size: 41
31938074 TGTGATTTAG
* *
31938084 TGTAAGACCATATCT-GGACGTTGGCATTGATTTGAGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATTGATTT--GATTACA
* * *
31938126 TGTAAGACCATGTCTGTGACATTGGCATCAT-ATTTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCAT--TGATTTGATTACA
* * *
31938168 TGTAAGACCCTGTCTGGGACAATAGCATTGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATTG--ATTTGATTACA
* * *
31938211 TGTAAGACCACGTTTGGGACGTTGGCATTG
1 TGTAAGACCATGTCTGGGACATTGGCATTG
31938241 TACGAGCTTT
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
42 43 0.47
43 43 0.47
44 4 0.04
45 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGATTTGATTACA
Found at i:31938218 original size:85 final size:84
Alignment explanation
Indices: 31938071--31938238 Score: 203
Period size: 85 Copynumber: 2.0 Consensus size: 84
31938061 AGGATTTTCG
** *
31938071 ATATGTGATTTAGTGTAAGACCATATCTGGACGTTGGCATTGATTTGAGATTACATGTAAGACCA
1 ATATGTGATTTAGTGTAAGACCATATCTGGACAATAGCATTGATTTGAGATTACATGTAAGACCA
* *
31938136 TGTCTGTGACATTGGCATC
66 CGTCTGGGACATTGGCATC
* * * * *
31938155 ATATTTGATTTCGTGTAAGACCCTGTCTGGGACAATAGCATTGATATT-TGATTACATGTAAGAC
1 ATATGTGATTTAGTGTAAGACCATATCT-GGACAATAGCATTGAT-TTGAGATTACATGTAAGAC
* *
31938219 CACGTTTGGGACGTTGGCAT
64 CACGTCTGGGACATTGGCAT
31938239 TGTACGAGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
84 24 0.34
85 44 0.63
86 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (84 bp):
ATATGTGATTTAGTGTAAGACCATATCTGGACAATAGCATTGATTTGAGATTACATGTAAGACCA
CGTCTGGGACATTGGCATC
Found at i:31938239 original size:43 final size:43
Alignment explanation
Indices: 31938084--31938240 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
31938074 TGTGATTTAG
** * *
31938084 TGTAAGACCATATCT-GGACGTTGGCATTGAT-TTGAGATTACA
1 TGTAAGACCACGTCTGGGACATTGGCATTGATATT-TGATTACA
* * * * *
31938126 TGTAAGACCATGTCTGTGACATTGGCA-TCATATTTGATTTCG
1 TGTAAGACCACGTCTGGGACATTGGCATTGATATTTGATTACA
* *
31938168 TGTAAGACC-CTGTCTGGGACAATAGCATTGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATTGATATTTGATTACA
* *
31938211 TGTAAGACCACGTTTGGGACGTTGGCATTG
1 TGTAAGACCACGTCTGGGACATTGGCATTG
31938241 TACGAGCTTT
Statistics
Matches: 92, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 44 0.48
43 47 0.51
44 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATTGATATTTGATTACA
Found at i:31943645 original size:24 final size:24
Alignment explanation
Indices: 31943598--31943675 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
31943588 CTCGCTTGTA
* * *
31943598 CTTCCCGATATATGGCTATCCAGAG
1 CTTCCCGTTA-ATGGCTCTACAGAG
31943623 CTTCCCGTTAATGGCTCTACAGAG
1 CTTCCCGTTAATGGCTCTACAGAG
* ** *
31943647 CTACTAGTTATTGGCTC-ACATGAG
1 CTTCCCGTTAATGGCTCTACA-GAG
31943671 CTTCC
1 CTTCC
31943676 TAATTATGGC
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
23 3 0.07
24 31 0.72
25 9 0.21
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (24 bp):
CTTCCCGTTAATGGCTCTACAGAG
Found at i:31943685 original size:24 final size:24
Alignment explanation
Indices: 31943633--31943699 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
31943623 CTTCCCGTTA
* *
31943633 ATGGCTCTACA-GAGC-TACTAGTT
1 ATGGCTC-ACATGAGCTTCCTAATT
31943656 ATTGGCTCACATGAGCTTCCTAATT
1 A-TGGCTCACATGAGCTTCCTAATT
**
31943681 ATGGCTCTTATGAGCTTCC
1 ATGGCTCACATGAGCTTCC
31943700 CATTATACAG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 4 0.11
24 26 0.70
25 7 0.19
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.34
Consensus pattern (24 bp):
ATGGCTCACATGAGCTTCCTAATT
Found at i:31947637 original size:43 final size:43
Alignment explanation
Indices: 31947468--31947638 Score: 136
Period size: 43 Copynumber: 4.0 Consensus size: 43
31947458 ATAGGACTCT
* * * *
31947468 GATATGTGATTTCGTGTAAGACCACGTCTAGGAAGTTGGCACC
1 GATATTTGATTACGTGTAAGACCACGTCTGGGAAGTTGGCATC
* * *
31947511 GAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACA-TCGGCATC
1 GATATT-TGA-TTACGTGTAAGACCACGTCTGGGA-AGTTGGCATC
* * * * *
31947555 G-TATATGATTTCTTGAAAAACC-CTGTCTGGGACAG-TGGCATC
1 GATATTTGATTACGTGTAAGACCAC-GTCTGGGA-AGTTGGCATC
* *
31947597 GATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
1 GATATTTGATTACGTGTAAGACCACGTCTGGGAAGTTGGCAT
31947639 TGTACGAGCC
Statistics
Matches: 98, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
42 29 0.30
43 38 0.39
44 30 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
GATATTTGATTACGTGTAAGACCACGTCTGGGAAGTTGGCATC
Found at i:31949069 original size:3 final size:3
Alignment explanation
Indices: 31949063--31949087 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
31949053 TAGTATTAAA
31949063 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
31949088 CATTGGGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:31953138 original size:39 final size:40
Alignment explanation
Indices: 31953095--31953279 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
31953085 ATTGTATGAA
* *
31953095 TGCACATACGTTCCCCTGTTGTACTTCGGTACTCCTAG-T
1 TGCACATACGTGCCCCTGTTGTACTTCGGTACCCCTAGAT
* * * *
31953134 TGCACATGCGTGCCTCTGTTTTTACTTCGGTA-CCCTTGAT
1 TGCACATACGTGCCCCTG-TTGTACTTCGGTACCCCTAGAT
* *
31953174 TGCACATACGTGTCCCTGTTGTACTTCAGTACCCCTA-AT
1 TGCACATACGTGCCCCTGTTGTACTTCGGTACCCCTAGAT
* *
31953213 TGCACATATGTGCCCCTATTTGTACTTCGGTACCCCT-GAT
1 TGCACATACGTGCCCCT-GTTGTACTTCGGTACCCCTAGAT
* *
31953253 TGCATATACGTGCCCCTATTTGTACTT
1 TGCACATACGTGCCCCT-GTTGTACTT
31953280 TAGTACTCCT
Statistics
Matches: 123, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 47 0.38
40 76 0.62
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (40 bp):
TGCACATACGTGCCCCTGTTGTACTTCGGTACCCCTAGAT
Found at i:31953177 original size:40 final size:39
Alignment explanation
Indices: 31953095--31953308 Score: 200
Period size: 40 Copynumber: 5.4 Consensus size: 39
31953085 ATTGTATGAA
* *
31953095 TGCACATACGTTCCCCTG-TTGTACTTCGGTACTCCT-AGT
1 TGCACATACG-TGCCCTGTTTGTACTTCGGTACCCCTGA-T
* * *
31953134 TGCACATGCGTGCCTCTGTTTTTACTTCGGTACCCTTGAT
1 TGCACATACGTGCC-CTGTTTGTACTTCGGTACCCCTGAT
* *
31953174 TGCACATACGTGTCCCTG-TTGTACTTCAGTACCCCTAAT
1 TGCACATACGTG-CCCTGTTTGTACTTCGGTACCCCTGAT
* *
31953213 TGCACATATGTGCCCCTATTTGTACTTCGGTACCCCTGAT
1 TGCACATACGTG-CCCTGTTTGTACTTCGGTACCCCTGAT
* * ** * *
31953253 TGCATATACGTGCCCCTATTTGTACTTTAGTACTCCTGAA
1 TGCACATACGTG-CCCTGTTTGTACTTCGGTACCCCTGAT
* *
31953293 TGCACTTACATGCCCT
1 TGCACATACGTGCCCT
31953309 TGATTATATT
Statistics
Matches: 146, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
38 3 0.02
39 48 0.33
40 92 0.63
41 3 0.02
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (39 bp):
TGCACATACGTGCCCTGTTTGTACTTCGGTACCCCTGAT
Found at i:31953226 original size:79 final size:79
Alignment explanation
Indices: 31953095--31953307 Score: 241
Period size: 79 Copynumber: 2.7 Consensus size: 79
31953085 ATTGTATGAA
* * * * * * *
31953095 TGCACATACGT-TCCCCTGTTGTACTTCGGTACTCCTAGTTGCACATGCGTGCCTCTGTTTTTAC
1 TGCACATACGTGT-CCCTGTTGTACTTCAGTACCCCTAATTGCACATACGTGCCCCTATTTGTAC
*
31953159 TTCGGTACCCTTGAT
65 TTCGGTACCCCTGAT
*
31953174 TGCACATACGTGTCCCTGTTGTACTTCAGTACCCCTAATTGCACATATGTGCCCCTATTTGTACT
1 TGCACATACGTGTCCCTGTTGTACTTCAGTACCCCTAATTGCACATACGTGCCCCTATTTGTACT
31953239 TCGGTACCCCTGAT
66 TCGGTACCCCTGAT
* * * * * * *
31953253 TGCATATACGTGCCCCTATTTGTACTTTAGTACTCCTGAA-TGCACTTACATGCCC
1 TGCACATACGTGTCCCT-GTTGTACTTCAGTACCCCT-AATTGCACATACGTGCCC
31953308 TTGATTATAT
Statistics
Matches: 114, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 83 0.73
80 29 0.25
81 2 0.02
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.36
Consensus pattern (79 bp):
TGCACATACGTGTCCCTGTTGTACTTCAGTACCCCTAATTGCACATACGTGCCCCTATTTGTACT
TCGGTACCCCTGAT
Found at i:31953248 original size:20 final size:20
Alignment explanation
Indices: 31953192--31953254 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
31953182 CGTGTCCCTG
31953192 TTGTACTTCAGTACCCCTAA
1 TTGTACTTCAGTACCCCTAA
* * * *
31953212 TTGCACAT-ATGTGCCCCTAT
1 TTGTACTTCA-GTACCCCTAA
* *
31953232 TTGTACTTCGGTACCCCTGA
1 TTGTACTTCAGTACCCCTAA
31953252 TTG
1 TTG
31953255 CATATACGTG
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.37
Consensus pattern (20 bp):
TTGTACTTCAGTACCCCTAA
Found at i:31955456 original size:29 final size:28
Alignment explanation
Indices: 31955397--31955505 Score: 123
Period size: 29 Copynumber: 3.8 Consensus size: 28
31955387 CATGCATATA
* *
31955397 GCCCATTAGGCCCAA-TCTTATTCAAATG
1 GCCCATTAGGCCCAATTCATATTC-TATG
*
31955425 GCCC-TTCTGGCCCAATTCATATTCTCATG
1 GCCCATT-AGGCCCAATTCATATTCT-ATG
*
31955454 GCCCATTAGGCCCAATTCACATTCATATG
1 GCCCATTAGGCCCAATTCATATTC-TATG
*
31955483 GCCCATTAGGCCCAAATCATATT
1 GCCCATTAGGCCCAATTCATATT
31955506 ATATTCATGC
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
27 2 0.03
28 11 0.16
29 53 0.77
30 3 0.04
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (28 bp):
GCCCATTAGGCCCAATTCATATTCTATG
Found at i:31955495 original size:58 final size:57
Alignment explanation
Indices: 31955397--31955505 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 57
31955387 CATGCATATA
** * *
31955397 GCCCATTAGGCCCAATCTTATTCAAATGGCCCTTCTGGCCCAATTCATATTCTCATG
1 GCCCATTAGGCCCAATCACATTCAAATGGCCCTTCAGGCCCAAATCATATTCTCATG
*
31955454 GCCCATTAGGCCCAATTCACATTCATATGGCCCATT-AGGCCCAAATCATATT
1 GCCCATTAGGCCCAA-TCACATTCAAATGGCCC-TTCAGGCCCAAATCATATT
31955506 ATATTCATGC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
57 15 0.33
58 28 0.62
59 2 0.04
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (57 bp):
GCCCATTAGGCCCAATCACATTCAAATGGCCCTTCAGGCCCAAATCATATTCTCATG
Found at i:31958938 original size:50 final size:50
Alignment explanation
Indices: 31958870--31959046 Score: 213
Period size: 50 Copynumber: 3.6 Consensus size: 50
31958860 ATCAAAGTCA
*
31958870 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTTAAATATCGAGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTTAAATATCGAGGCCG
* ** * *
31958920 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATTTGTCG-GTGTCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTTAAATATCGAG-GCCG
* * *
31958970 ATGCCATGTCCCAGACATGGTCTTACACTGA--C--ACATATC-AAGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTTAAATATCGAGGCCG
*
31959015 ATGCCATGTCCCAAACATGCTCTTACACTGAC
1 ATGCCATGTCCCAAACATGGTCTTACACTGAC
31959047 ACATATCACG
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
45 32 0.29
46 4 0.04
48 1 0.01
49 1 0.01
50 71 0.65
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (50 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGACTCTTAAATATCGAGGCCG
Found at i:31959033 original size:45 final size:45
Alignment explanation
Indices: 31958870--31959100 Score: 212
Period size: 50 Copynumber: 4.9 Consensus size: 45
31958860 ATCAAAGTCA
* * *
31958870 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTTAAATATCGAGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGA--C--ACATATC-AAGCCG
* * * ** *
31958920 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATTTGTCGGTGTCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACAC--A--TATC-AAGCCG
*
31958970 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACACATATCAAGCCG
* * *
31959015 ATGCCATGTCCCAAACATGCTCTTACACTGACACATATCACGTCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGACACATATCAAGCCG
* *
31959060 ATTCCATGTTCCAAACAT-GTCTTACACTAGCACACATATCA
1 ATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATATCA
31959101 CCCAAATGTC
Statistics
Matches: 153, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
44 9 0.06
45 61 0.40
46 13 0.08
48 3 0.02
50 67 0.44
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (45 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGACACATATCAAGCCG
Found at i:31960986 original size:24 final size:24
Alignment explanation
Indices: 31960909--31960985 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
31960899 GATTATTTGA
31960909 TTTCTCGTTTCTCATTTATTTACT
1 TTTCTCGTTTCTCATTTATTTACT
* *
31960933 TTTCTCGTTTTTCATTAATTTACT
1 TTTCTCGTTTCTCATTTATTTACT
*
31960957 TTTCTTGTTTCTCATTTATTTACT
1 TTTCTCGTTTCTCATTTATTTACT
31960981 TTTCT
1 TTTCT
31960986 TTTATTTGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.13, C:0.18, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTCTCGTTTCTCATTTATTTACT
Found at i:31962253 original size:50 final size:52
Alignment explanation
Indices: 31962189--31962307 Score: 163
Period size: 50 Copynumber: 2.3 Consensus size: 52
31962179 TTAATAAAGC
* * * *
31962189 CATGCCTTATGTAACTCTCATGTTAGTT-AGGTTTGCATCA-TAAATTATGA-
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTA-CAT
31962239 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTACAT
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTACAT
*
31962291 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
31962308 ATTTGTTCAT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 26 0.43
51 12 0.20
52 23 0.38
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTACAT
Found at i:31964146 original size:16 final size:16
Alignment explanation
Indices: 31964127--31964162 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
31964117 CTTAAAAAGT
31964127 ATAAAAACTAAAAT-TA
1 ATAAAAA-TAAAATATA
31964143 ATAAAAATAAAATATA
1 ATAAAAATAAAATATA
31964159 ATAA
1 ATAA
31964163 TTAAATTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
ATAAAAATAAAATATA
Found at i:31965220 original size:26 final size:31
Alignment explanation
Indices: 31965188--31965252 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 31
31965178 GTTAGTGATT
31965188 TAATATA-AAT-ATATAATTAT-TATT-TAA
1 TAATATAGAATAATATAATTATCTATTATAA
*
31965215 -AATATATGATTAATATAATTATCTATTATAA
1 TAATATA-GAATAATATAATTATCTATTATAA
31965246 TAATATA
1 TAATATA
31965253 TTCGAGTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 6 0.19
28 2 0.06
29 10 0.32
30 4 0.13
31 3 0.10
32 6 0.19
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (31 bp):
TAATATAGAATAATATAATTATCTATTATAA
Found at i:31965894 original size:38 final size:38
Alignment explanation
Indices: 31965850--31965929 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
31965840 ATTGACACAC
*
31965850 TTTTAAATAATAAAAAATT-AATATAAA-TCCTTAATTTT
1 TTTTAAATAA-AAAAAATTCAATATAAATTCC-TAATTCT
* *
31965888 TTTTAAATAACAAAAATTCAATCTAAATTCCTAATTCT
1 TTTTAAATAAAAAAAATTCAATATAAATTCCTAATTCT
31965926 TTTT
1 TTTT
31965930 CTTCTTGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 7 0.19
38 27 0.73
39 3 0.08
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (38 bp):
TTTTAAATAAAAAAAATTCAATATAAATTCCTAATTCT
Found at i:31974455 original size:10 final size:10
Alignment explanation
Indices: 31974442--31974516 Score: 62
Period size: 10 Copynumber: 7.5 Consensus size: 10
31974432 TAAAAAAATT
31974442 AAAAATTATA
1 AAAAATTATA
*
31974452 AAAAA-TATT
1 AAAAATTATA
* *
31974461 AAAATTTATT
1 AAAAATTATA
* *
31974471 TAAAATTATT
1 AAAAATTATA
*
31974481 AAAAATCATA
1 AAAAATTATA
*
31974491 AAAAATCATA
1 AAAAATTATA
*
31974501 AGAAATTATTA
1 AAAAATTA-TA
31974512 AAAAA
1 AAAAA
31974517 AGGAATAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
9 7 0.13
10 40 0.75
11 6 0.11
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (10 bp):
AAAAATTATA
Found at i:31974513 original size:39 final size:39
Alignment explanation
Indices: 31974439--31974515 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 39
31974429 AACTAAAAAA
* *
31974439 ATTAAAAATTATAAAAAATATTAAAATTTATTTAAAATT
1 ATTAAAAATCATAAAAAATATTAAAAATTATTTAAAATT
*
31974478 ATTAAAAATCATAAAAAATCA-TAAGAAATTATTAAAAA
1 ATTAAAAATCATAAAAAAT-ATTAA-AAATTATTTAAAA
31974516 AAGGAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 21 0.64
40 12 0.36
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (39 bp):
ATTAAAAATCATAAAAAATATTAAAAATTATTTAAAATT
Found at i:31975931 original size:25 final size:26
Alignment explanation
Indices: 31975858--31975931 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 26
31975848 TGGACTCACC
31975858 ACAACTCGTATGAGCTTACCGAT-TT
1 ACAACTCGTATGAGCTTACCGATATT
* * * **
31975883 ACAGCTCATGA-GAGCCTATTGATATT
1 ACAACTCGT-ATGAGCTTACCGATATT
31975909 -CAACTCGTATGAGCTTACCGATA
1 ACAACTCGTATGAGCTTACCGATA
31975932 CTCAGCTCAG
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
24 1 0.03
25 32 0.89
26 3 0.08
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (26 bp):
ACAACTCGTATGAGCTTACCGATATT
Found at i:31982524 original size:28 final size:28
Alignment explanation
Indices: 31982492--31982590 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
31982482 GCAATAAGCC
*
31982492 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
31982520 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
31982548 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
31982577 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31982591 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:31990193 original size:28 final size:28
Alignment explanation
Indices: 31990161--31990259 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
31990151 GCAATAAGCC
*
31990161 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
31990189 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
31990217 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
31990246 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31990260 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:31991667 original size:29 final size:29
Alignment explanation
Indices: 31991597--31991704 Score: 117
Period size: 29 Copynumber: 3.7 Consensus size: 29
31991587 GTTAAAATGG
* * * *
31991597 AAGCCTTAGTGGCTATATTTATTATAATGA
1 AAGCCTTTGTGGCGATCTCTATTATAA-GA
*
31991627 AAGTCTTTGTGGCGATCTCTATTATAAGA
1 AAGCCTTTGTGGCGATCTCTATTATAAGA
* *
31991656 AAGCCTTTGTGGCGATCTTTGTTATAAGA
1 AAGCCTTTGTGGCGATCTCTATTATAAGA
* * *
31991685 AAACCTTTATGGCTATCTCT
1 AAGCCTTTGTGGCGATCTCT
31991705 GTCAAAAGGA
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
29 44 0.67
30 22 0.33
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (29 bp):
AAGCCTTTGTGGCGATCTCTATTATAAGA
Found at i:31991720 original size:29 final size:29
Alignment explanation
Indices: 31991688--31991777 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 29
31991678 TATAAGAAAA
* *
31991688 CCTTTATGGCTATCTCTGTCAAAAGGATT
1 CCTTTATGGCTATCTCTATCAAAAGGATG
*
31991717 CCTTTATGGCTATATCTATCAAAAGGATG
1 CCTTTATGGCTATCTCTATCAAAAGGATG
* *
31991746 CCTTTATGGCTATCGCTAT-TAAAGGAATG
1 CCTTTATGGCTATCTCTATCAAAAGG-ATG
31991775 CCT
1 CCT
31991778 GGTGGTAAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 5 0.09
29 49 0.91
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (29 bp):
CCTTTATGGCTATCTCTATCAAAAGGATG
Found at i:31995240 original size:27 final size:27
Alignment explanation
Indices: 31995210--31995441 Score: 317
Period size: 27 Copynumber: 8.6 Consensus size: 27
31995200 TTAGTTTACC
*
31995210 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * **
31995237 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
31995264 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
31995291 AAATTACTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
31995318 AAA-TACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
31995344 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
31995371 AAATT-CTCAAAATACCCCTAGTTTGTA
1 AAATTAC-CAAAATACCCCTAGTTTGTA
*
31995398 AAATTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
**
31995425 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
31995442 TCGACCTATA
Statistics
Matches: 183, Mismatches: 18, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
26 25 0.14
27 157 0.86
28 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:31995382 original size:107 final size:108
Alignment explanation
Indices: 31995200--31995414 Score: 344
Period size: 107 Copynumber: 2.0 Consensus size: 108
31995190 TTAGAATACT
* * *
31995200 TTAGTTTACCAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAA
1 TTAGTTTACCAAAATACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTACAA
*
31995265 AATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCC
66 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
* **
31995308 TTAGTTTA-TAAAATACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAA
1 TTAGTTTACCAAAATACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTACAA
31995372 AATT-CTCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
66 AATTAC-CAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
31995415 CTGATTTGTG
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
106 1 0.01
107 90 0.91
108 8 0.08
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (108 bp):
TTAGTTTACCAAAATACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTACAA
AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
Found at i:31995494 original size:27 final size:27
Alignment explanation
Indices: 31995210--31995502 Score: 285
Period size: 27 Copynumber: 10.9 Consensus size: 27
31995200 TTAGTTTACC
*
31995210 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* * **
31995237 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGATTTGTA
31995264 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
* * *
31995291 AAATTACTAAAATA-CCCTTAGTTTATA
1 AAATTACCAAAATACCCCTGA-TTTGTA
31995318 AAA-TACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*
31995344 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
31995371 AAATT-CTCAAAATACCCCT-AGTTTGTA
1 AAATTAC-CAAAATACCCCTGA-TTTGTA
*
31995398 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
** ** *
31995425 AAATTACTGAAATA-CCCTCGACCTATA
1 AAATTACCAAAATACCCCT-GATTTGTA
*** * *
31995452 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
31995479 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCCTGATTT
31995503 ACAGAATTAT
Statistics
Matches: 226, Mismatches: 29, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
26 28 0.12
27 193 0.85
28 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:31995510 original size:27 final size:25
Alignment explanation
Indices: 31995204--31995552 Score: 86
Period size: 27 Copynumber: 13.0 Consensus size: 25
31995194 AATACTTTAG
* *
31995204 TTTACCAAATTACCAAAATACCCCTGGT
1 TTTA-CAAATTACC-AAATA-CCCTTGA
*
31995232 TTGTA-AAATTACCAAAATACCCTTGG
1 TT-TACAAATTACC-AAATACCCTTGA
* *
31995258 TTTACAAAATTACCAAAATACCCCTAGT
1 TTTAC-AAATTACC-AAATA-CCCTTGA
*
31995286 TTGTA-AAATTACTAAAATACCCTT-A
1 TT-TACAAATTAC-CAAATACCCTTGA
* * * *
31995311 GTTTATAAAATACCAAAATACCCCTAGT
1 -TTTACAAATTACC-AAATA-CCCTTGA
* *
31995339 TTGTA-AAATTACCAAAATACCCCTGGT
1 TT-TACAAATTACC-AAATA-CCCTTGA
* *
31995366 TTGTA-AAATT-CTCAAAATACCCCTAGT
1 TT-TACAAATTAC-C-AAATA-CCCTTGA
*
31995393 TTGTA-AAATTACCAAAATACCCCTGA
1 TT-TACAAATTACC-AAATACCCTTGA
** * *
31995419 TTTGTGAAATTACTGAAATACCCTCGA
1 TTT-ACAAATTAC-CAAATACCCTTGA
* **
31995446 CCTATA-AAATTATTGAAATACCCTTGA
1 --TTTACAAATTA-CCAAATACCCTTGA
31995473 CTTGTA-AAATTACCAAAGTACCCTTGA
1 -TT-TACAAATTACCAAA-TACCCTTGA
**** *
31995500 TTTACAGAATTATCGTTTTACCCTCGA
1 TTTACA-AATTA-CCAAATACCCTTGA
31995527 TTTACAAAATTACCGAAATACCCTTG
1 TTTAC-AAATTACC-AAATACCCTTG
31995553 TAGGGTAGAA
Statistics
Matches: 256, Mismatches: 38, Indels: 55
0.73 0.11 0.16
Matches are distributed among these distances:
25 7 0.03
26 40 0.16
27 189 0.74
28 14 0.05
29 6 0.02
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.32
Consensus pattern (25 bp):
TTTACAAATTACCAAATACCCTTGA
Found at i:31995600 original size:54 final size:55
Alignment explanation
Indices: 31995542--31995782 Score: 239
Period size: 54 Copynumber: 4.5 Consensus size: 55
31995532 AAAATTACCG
31995542 AAATACCCTTGTAGGGTAGAAATGT-C-GAAATACCCTTGTAAGGTAGAAATACTA
1 AAATACCCTTGTAGGGTAGAAAT-TACTGAAATACCCTTGTAAGGTAGAAATACTA
* * * * *
31995596 AAATACCCCTGTAGGATAGAAA-TACCGAAATACCCCTGTAAGGTAGAATTACTA
1 AAATACCCTTGTAGGGTAGAAATTACTGAAATACCCTTGTAAGGTAGAAATACTA
* * * *
31995650 AAATA-CCTCTATAGTGTAG-AATTACTGAAATACCCTTGTAGGGTAGAAATA-TCG
1 AAATACCCT-TGTAGGGTAGAAATTACTGAAATACCCTTGTAAGGTAGAAATACT-A
* * * **
31995704 AAATACCCCTGTAGGGTAG-AATTACTAAAATACTCC-TGTAAGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAAATTACTGAAATAC-CCTTGTAAGGTAGAAATACTA
* *
31995758 ATATACCCTTGTGGGGTA-AAATTAC
1 AAATACCCTTGTAGGGTAGAAATTAC
31995783 CATTTTACCC
Statistics
Matches: 155, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
52 1 0.01
53 6 0.04
54 144 0.93
55 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (55 bp):
AAATACCCTTGTAGGGTAGAAATTACTGAAATACCCTTGTAAGGTAGAAATACTA
Found at i:31995750 original size:81 final size:80
Alignment explanation
Indices: 31995537--31995779 Score: 296
Period size: 81 Copynumber: 3.0 Consensus size: 80
31995527 TTTACAAAAT
* * * *
31995537 TACCGAAATACCCTTGTAGGGTAGAAATGT-C-GAAATACCCTTGTAAGGTAGAAATACTAAAAT
1 TACCGAAATACCCCTGTAGGGTAG-AAT-TACTAAAATACCC-TGTAAGGTAGAATTACTGAAAT
* *
31995600 ACCCCTGTAGGATAGAAA
63 ACCCTTGTAGGGTAGAAA
* *
31995618 TACCGAAATACCCCTGTAAGGTAGAATTACTAAAATA-CCTCTATAGTGTAGAATTACTGAAATA
1 TACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCTGTA-AG-GTAGAATTACTGAAATA
31995682 CCCTTGTAGGGTAGAAA
64 CCCTTGTAGGGTAGAAA
* * *
31995699 TATCGAAATACCCCTGTAGGGTAGAATTACTAAAATACTCCTGTAAGGTAGAATTACCGATATAC
1 TACCGAAATACCCCTGTAGGGTAGAATTACTAAAATAC-CCTGTAAGGTAGAATTACTGAAATAC
*
31995764 CCTTGTGGGGTA-AAA
65 CCTTGTAGGGTAGAAA
31995779 T
1 T
31995780 TACCATTTTA
Statistics
Matches: 142, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
79 4 0.03
80 12 0.08
81 119 0.84
82 2 0.01
83 5 0.04
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (80 bp):
TACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCTGTAAGGTAGAATTACTGAAATACC
CTTGTAGGGTAGAAA
Found at i:31995781 original size:27 final size:27
Alignment explanation
Indices: 31995532--31995783 Score: 185
Period size: 27 Copynumber: 9.3 Consensus size: 27
31995522 CTCGATTTAC
31995532 AAAATTACCGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
*
31995559 AGAAATGT--CGAAATACCCTTGTAAGGT
1 A-AAAT-TACCGAAATACCCTTGTAGGGT
** * *
31995586 AGAAA-TACTAAAATACCCCTGTAGGAT
1 A-AAATTACCGAAATACCCTTGTAGGGT
* *
31995613 AGAAA-TACCGAAATACCCCTGTAAGGT
1 A-AAATTACCGAAATACCCTTGTAGGGT
* ** * *
31995640 AGAATTACTAAAATA-CCTCTATAGTGT
1 AAAATTACCGAAATACCCT-TGTAGGGT
* *
31995667 AGAATTACTGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
* *
31995694 AGAAA-TATCGAAATACCCCTGTAGGGT
1 A-AAATTACCGAAATACCCTTGTAGGGT
* ** *
31995721 AGAATTACTAAAATACTCC-TGTAAGGT
1 AAAATTACCGAAATAC-CCTTGTAGGGT
* * *
31995748 AGAATTACCGATATACCCTTGTGGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
31995775 AAAATTACC
1 AAAATTACC
31995784 ATTTTACCCC
Statistics
Matches: 179, Mismatches: 35, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
25 1 0.01
26 8 0.04
27 158 0.88
28 11 0.06
29 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTTGTAGGGT
Found at i:31996207 original size:6 final size:6
Alignment explanation
Indices: 31996198--31996363 Score: 135
Period size: 6 Copynumber: 26.8 Consensus size: 6
31996188 TTGCATTCAC
*
31996198 ATTCTG ATTCTG ATTCTG ATTCT- ATTACTTG ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG
* * * *
31996247 -TGACCTA ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* *
31996297 ATTCTG ATTCTG -TTACCTA ATTTTG ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
31996346 -TCACCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCT
31996364 CATTTTAATT
Statistics
Matches: 129, Mismatches: 16, Indels: 30
0.74 0.09 0.17
Matches are distributed among these distances:
5 9 0.07
6 101 0.78
7 12 0.09
8 7 0.05
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:31996230 original size:25 final size:24
Alignment explanation
Indices: 31996198--31996363 Score: 135
Period size: 25 Copynumber: 6.7 Consensus size: 24
31996188 TTGCATTCAC
31996198 ATTCTGATTCTGATTCTGATTCT-
1 ATTCTGATTCTGATTCTGATTCTG
*
31996221 ATTACTTGATACTGATTCTGATTCTG
1 ATT-C-TGATTCTGATTCTGATTCTG
* * *
31996247 -TGACCTAATTCTGATTCTGGTTCTG
1 AT--TCTGATTCTGATTCTGATTCTG
*
31996272 ATTCTGATTCTG-TTACCTGATACTG
1 ATTCTGATTCTGATT--CTGATTCTG
* *
31996297 ATTCTGATTCTG-TTACCTAATTTTG
1 ATTCTGATTCTGATT--CTGATTCTG
31996322 ATTCTGATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGATTCTG
*
31996346 -TCACCTGATTCTGATTCT
1 AT--TCTGATTCTGATTCT
31996364 CATTTTAATT
Statistics
Matches: 117, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
23 6 0.05
24 16 0.14
25 91 0.78
26 4 0.03
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGATTCTG
Found at i:31996273 original size:37 final size:37
Alignment explanation
Indices: 31996227--31996308 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
31996217 TTCTATTACT
* *
31996227 TGATACTGATTCTGATTCTGTGACCTAATTCTGATTC
1 TGATTCTGATTCTGATTCTGTGACCTAATACTGATTC
* * *
31996264 TGGTTCTGATTCTGATTCTGTTACCTGATACTGATTC
1 TGATTCTGATTCTGATTCTGTGACCTAATACTGATTC
31996301 TGATTCTG
1 TGATTCTG
31996309 TTACCTAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (37 bp):
TGATTCTGATTCTGATTCTGTGACCTAATACTGATTC
Found at i:31996295 original size:62 final size:62
Alignment explanation
Indices: 31996198--31996363 Score: 269
Period size: 62 Copynumber: 2.7 Consensus size: 62
31996188 TTGCATTCAC
* *
31996198 ATTCTGATTCTGATTCTGATTCTATTACTTGATACTGATTCTGATTCTGTGACCTAATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTGACCTAATTCTG
* * *
31996260 ATTCTGGTTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTTTG
1 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTGACCTAATTCTG
* *
31996322 ATTCTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCT
31996364 CATTTTAATT
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 96 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTGACCTAATTCTG
Found at i:31996329 original size:37 final size:37
Alignment explanation
Indices: 31996288--31996363 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
31996278 ATTCTGTTAC
* *
31996288 CTGATACTGATTCTGATTCTGTTACCTAATTTTGATT
1 CTGATACTGATTCTGATTCTGTCACCTAATTCTGATT
* *
31996325 CTGATTCTGATTCTGATTCTGTCACCTGATTCTGATT
1 CTGATACTGATTCTGATTCTGTCACCTAATTCTGATT
31996362 CT
1 CT
31996364 CATTTTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.47
Consensus pattern (37 bp):
CTGATACTGATTCTGATTCTGTCACCTAATTCTGATT
Found at i:31996382 original size:37 final size:37
Alignment explanation
Indices: 31996297--31996375 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
31996287 CCTGATACTG
* * * *
31996297 ATTCTGATTCTGTTACCTAATTTTGATTCTGATTCTG
1 ATTCTGATTCTGTCACCTAATTCTGATTCTCATTCTA
* *
31996334 ATTCTGATTCTGTCACCTGATTCTGATTCTCATTTTA
1 ATTCTGATTCTGTCACCTAATTCTGATTCTCATTCTA
31996371 ATTCT
1 ATTCT
31996376 AGTTCTGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.51
Consensus pattern (37 bp):
ATTCTGATTCTGTCACCTAATTCTGATTCTCATTCTA
Found at i:31998857 original size:46 final size:46
Alignment explanation
Indices: 31998807--31998982 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
31998797 TGGTTGAGCA
31998807 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31998853 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
31998898 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31998946 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31998983 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31998963 original size:93 final size:93
Alignment explanation
Indices: 31998804--31998975 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
31998794 GGATGGTTGA
* *
31998804 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31998869 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
31998897 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31998962 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
31998976 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:32006438 original size:46 final size:46
Alignment explanation
Indices: 32006388--32006563 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
32006378 TGGTTGAGCA
32006388 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
32006434 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
32006479 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
32006527 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32006564 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:32006544 original size:93 final size:93
Alignment explanation
Indices: 32006385--32006556 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
32006375 GGATGGTTGA
* *
32006385 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
32006450 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
32006478 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
32006543 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
32006557 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:32009298 original size:27 final size:27
Alignment explanation
Indices: 32009268--32009500 Score: 324
Period size: 27 Copynumber: 8.6 Consensus size: 27
32009258 TTAGTTTACC
32009268 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
32009295 AAATTACCAAAATACTCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
32009322 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
32009349 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
32009376 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
32009403 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
32009430 AAATT-CTCAAAATACCCCTAGTTTGTA
1 AAATTAC-CAAAATACCCCTGGTTTGTA
* *
32009457 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
32009484 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
32009501 TCGACCTATA
Statistics
Matches: 182, Mismatches: 22, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 180 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:32009406 original size:81 final size:80
Alignment explanation
Indices: 32009268--32009557 Score: 325
Period size: 81 Copynumber: 3.6 Consensus size: 80
32009258 TTAGTTTACC
* * **
32009268 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACTCTTGGTTTACAAAATTACCAAA
1 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTT-GTTTGTAAAATTACCAAA
32009333 ATACCCCTGGTTTGTA
65 ATACCCCTGGTTTGTA
* *
32009349 AAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAA
1 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTT-GTTTGTAAAATTACCAAA
32009414 ATACCCCTGGTTTGTA
65 ATACCCCTGGTTTGTA
* * * **
32009430 AAATT-CTCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGA
1 AAATTACT-AAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG-TTTGTAAAATTACCAA
*** *
32009494 AATA-CCCTCGACCTATA
64 AATACCCCT-GGTTTGTA
* * ** *
32009511 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTTG
1 AAATTACTAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTG
32009558 ATTTACAGAA
Statistics
Matches: 179, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
80 11 0.06
81 167 0.93
82 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGTTTGTAAAATTACCAAAA
TACCCCTGGTTTGTA
Found at i:32009553 original size:27 final size:27
Alignment explanation
Indices: 32009268--32009609 Score: 248
Period size: 27 Copynumber: 12.7 Consensus size: 27
32009258 TTAGTTTACC
*
32009268 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * **
32009295 AAATTACCAAAATACTCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
32009322 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * *
32009349 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
32009376 AAATTACCAAAATACCCT-TAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
32009403 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
32009430 AAATT-CTCAAAATACCC-CTAGTTTGTA
1 AAATTAC-CAAAATACCCTCGA-TTTGTA
*
32009457 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** ** *
32009484 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
32009511 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
32009538 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** **
32009565 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
32009592 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
32009610 TGTAAGGTAG
Statistics
Matches: 256, Mismatches: 48, Indels: 22
0.79 0.15 0.07
Matches are distributed among these distances:
26 1 0.00
27 252 0.98
28 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:32009631 original size:27 final size:27
Alignment explanation
Indices: 32009596--32009838 Score: 258
Period size: 27 Copynumber: 9.0 Consensus size: 27
32009586 TTTACAAAAT
*
32009596 TACCGAAATACCCTTGTAAGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
32009623 TGCCAAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
** *
32009650 TACTAAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * * *
32009677 TATCGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
** * *
32009704 TACTAAAATA-CCTCTGTAGTGTAGAAT
1 TACCGAAATACCCT-TGTAGGGTAGAAA
32009731 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
32009758 TATCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
32009785 TACTGAAATACTCC-TGTAAGGTAGAAT
1 TACCGAAATAC-CCTTGTAGGGTAGAAA
*
32009812 TACCGAGATACCCTTGTAGGGTA-AAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
32009838 T
1 T
32009839 TACCATTTTA
Statistics
Matches: 181, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
26 7 0.04
27 169 0.93
28 5 0.03
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:32010266 original size:6 final size:6
Alignment explanation
Indices: 32010257--32010443 Score: 134
Period size: 6 Copynumber: 30.3 Consensus size: 6
32010247 TTGCATTCAC
*
32010257 ATTCTG ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * * *
32010306 -TGACCTA ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * *
32010356 ATTCTG ATTCTG -TTACCTA ATTTTG ATTCTG ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
32010405 -TCACCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
32010444 AATGTTTCTT
Statistics
Matches: 142, Mismatches: 22, Indels: 34
0.72 0.11 0.17
Matches are distributed among these distances:
5 9 0.06
6 114 0.80
7 13 0.09
8 6 0.04
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:32010288 original size:25 final size:24
Alignment explanation
Indices: 32010257--32010443 Score: 134
Period size: 25 Copynumber: 7.6 Consensus size: 24
32010247 TTGCATTCAC
32010257 ATTCTGATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGATTCTG
*
32010281 -TTACCTGATACTGATTCTGATTCTG
1 ATT--CTGATTCTGATTCTGATTCTG
* * *
32010306 -TGACCTAATTCTGATTCTGGTTCTG
1 AT--TCTGATTCTGATTCTGATTCTG
*
32010331 ATTCTGATTCTG-TTACCTGATACTG
1 ATTCTGATTCTGATT--CTGATTCTG
* *
32010356 ATTCTGATTCTG-TTACCTAATTTTG
1 ATTCTGATTCTGATT--CTGATTCTG
*
32010381 ATTCTGATTCTGATTCTGATTTTG
1 ATTCTGATTCTGATTCTGATTCTG
* * *
32010405 -TCACCTGATTCTGATTCTCATTTTG
1 AT--TCTGATTCTGATTCTGATTCTG
32010430 ATTCT-AGTTCTGAT
1 ATTCTGA-TTCTGAT
32010444 AATGTTTCTT
Statistics
Matches: 135, Mismatches: 16, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
23 6 0.04
24 25 0.19
25 100 0.74
26 4 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGATTCTG
Found at i:32010332 original size:37 final size:37
Alignment explanation
Indices: 32010285--32010367 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
32010275 ATTCTGTTAC
* *
32010285 CTGATACTGATTCTGATTCTGTGACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTGACCTAATACTGATT
* * *
32010322 CTGGTTCTGATTCTGATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTCTGATTCTGTGACCTAATACTGATT
32010359 CTGATTCTG
1 CTGATTCTG
32010368 TTACCTAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.45
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTGACCTAATACTGATT
Found at i:32010354 original size:62 final size:62
Alignment explanation
Indices: 32010257--32010422 Score: 278
Period size: 62 Copynumber: 2.7 Consensus size: 62
32010247 TTGCATTCAC
32010257 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTGACCTAATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTGACCTAATTCTG
* * *
32010319 ATTCTGGTTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTTTG
1 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTGACCTAATTCTG
* * *
32010381 ATTCTGATTCTGATTCTGATTTTGTCACCTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCT
32010423 CATTTTGATT
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 97 1.00
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.48
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTGACCTAATTCTG
Found at i:32010432 original size:37 final size:37
Alignment explanation
Indices: 32010353--32010434 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
32010343 TTACCTGATA
* * *
32010353 CTGATTCTGATTCTGTTACCTAATTTTGATTCTGATT
1 CTGATTCTGATTCTGTCACCTAATTCTGATTCTCATT
* *
32010390 CTGATTCTGATTTTGTCACCTGATTCTGATTCTCATT
1 CTGATTCTGATTCTGTCACCTAATTCTGATTCTCATT
*
32010427 TTGATTCT
1 CTGATTCT
32010435 AGTTCTGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.17, C:0.18, G:0.13, T:0.51
Consensus pattern (37 bp):
CTGATTCTGATTCTGTCACCTAATTCTGATTCTCATT
Found at i:32011988 original size:26 final size:22
Alignment explanation
Indices: 32011902--32011990 Score: 79
Period size: 23 Copynumber: 3.7 Consensus size: 22
32011892 TGATGGACAA
* *
32011902 TAAGCTCTACTGAGCTGAAACGG
1 TAAGCTTTAC-GAGCTGAATCGG
*
32011925 TAAGCTTTGACGAGCTGAATCAG
1 TAAGCTTT-ACGAGCTGAATCGG
*
32011948 TAAGCTCTTATGAGCTGATATATCGG
1 TAAGCT-TTACGAGCTG--A-ATCGG
32011974 TAAGCTTATACGAGCTG
1 TAAGCTT-TACGAGCTG
32011991 TGGTGAGTCC
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
23 30 0.56
24 4 0.07
25 2 0.04
26 18 0.33
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (22 bp):
TAAGCTTTACGAGCTGAATCGG
Found at i:32021755 original size:15 final size:14
Alignment explanation
Indices: 32021720--32021758 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
32021710 AAAATTAAAG
*
32021720 CACAAA-AATTTCA
1 CACAAATAAATTCA
32021733 CACAAATAAATTCA
1 CACAAATAAATTCA
32021747 CACATAATAAAT
1 CACA-AATAAAT
32021759 ACAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.26
14 10 0.43
15 7 0.30
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (14 bp):
CACAAATAAATTCA
Found at i:32023727 original size:26 final size:26
Alignment explanation
Indices: 32023693--32023745 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
32023683 AGCTCTTAGG
32023693 AGTAAACTATCCATGTATCCATTGGT
1 AGTAAACTATCCATGTATCCATTGGT
*
32023719 AGTATACTATCCATGTATCCATTGGT
1 AGTAAACTATCCATGTATCCATTGGT
32023745 A
1 A
32023746 TTTCCGAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (26 bp):
AGTAAACTATCCATGTATCCATTGGT
Found at i:32024912 original size:21 final size:21
Alignment explanation
Indices: 32024879--32024932 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
32024869 TATAATGACA
* *
32024879 ACACCGGCATGTTGCCCTTCT
1 ACACGGGCGTGTTGCCCTTCT
32024900 ACACGGGCGTGTTGCCCTTCT
1 ACACGGGCGTGTTGCCCTTCT
32024921 ACACGGGCGTGT
1 ACACGGGCGTGT
32024933 GCCTTGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.13, C:0.33, G:0.28, T:0.26
Consensus pattern (21 bp):
ACACGGGCGTGTTGCCCTTCT
Found at i:32027889 original size:36 final size:36
Alignment explanation
Indices: 32027842--32027912 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
32027832 TGTGTGAATG
*
32027842 AGTATAAGGAATGTCACACCACTGGCTTGATAGAAC
1 AGTATAAGGAATGTCACACCACTAGCTTGATAGAAC
32027878 AGTATAAGGAATGTCACACCACTAGCTTGATAGAA
1 AGTATAAGGAATGTCACACCACTAGCTTGATAGAA
32027913 ATAGCAGTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (36 bp):
AGTATAAGGAATGTCACACCACTAGCTTGATAGAAC
Found at i:32036394 original size:57 final size:58
Alignment explanation
Indices: 32036263--32036403 Score: 153
Period size: 57 Copynumber: 2.4 Consensus size: 58
32036253 CATTATAGAA
* * *
32036263 AGGATTTAGCCTGGACGGGTAATCCTAATATAATCTCTCTCGAGCATATGTTACAATT
1 AGGATTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTCGAGCATAGGTTACAATT
* * * * * * *
32036321 AGGGTTTATCTTGGACTGGTAATCCTAAT-TGAGCTCTTTTGAGCATAGGTTTCGTAA-T
1 AGGATTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTCGAGCATAGGTTAC--AATT
32036379 -GGATTTAGCCTGGACTGGTAATCCT
1 AGGATTTAGCCTGGACTGGTAATCCT
32036404 GTAATACGAT
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
57 40 0.59
58 26 0.38
59 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (58 bp):
AGGATTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTCGAGCATAGGTTACAATT
Found at i:32039855 original size:30 final size:29
Alignment explanation
Indices: 32039761--32039862 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
32039751 TATAGTGAAT
* * *
32039761 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
32039790 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
32039818 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
32039848 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
32039863 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:32047680 original size:29 final size:30
Alignment explanation
Indices: 32047647--32047720 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
32047637 TATAGTGAAT
* * *
32047647 CCGCACACTTAGTGCTATA-TATTTTCAGC
1 CCGCACACTTAGTGCTATACAATTTTAAAC
* *
32047676 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAATTTTAAAC
32047706 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
32047721 CAATCTTGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 17 0.45
30 21 0.55
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (30 bp):
CCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:32057545 original size:21 final size:22
Alignment explanation
Indices: 32057502--32057545 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
32057492 TTCATATTAG
32057502 TGACTTTATATTTGAATGCAAA
1 TGACTTTATATTTGAATGCAAA
* *
32057524 TGACTTTA-ATTTGGATGGAAA
1 TGACTTTATATTTGAATGCAAA
32057545 T
1 T
32057546 TTATGACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (22 bp):
TGACTTTATATTTGAATGCAAA
Found at i:32061608 original size:28 final size:28
Alignment explanation
Indices: 32061510--32061608 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
32061500 TCACAAATTG
* * * *
32061510 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCGAGTTC-GACTATATA
* * * *
32061539 ACACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTCGACTATATA
32061567 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTCGACTATAT-A
32061595 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
32061609 GGCTTATTGC
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.73
29 15 0.25
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTCGACTATATA
Found at i:32069452 original size:30 final size:30
Alignment explanation
Indices: 32069416--32069516 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
32069406 GACAAGATTG
* * *
32069416 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
32069446 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
32069474 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
32069503 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
32069517 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:32069528 original size:29 final size:28
Alignment explanation
Indices: 32069445--32069520 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
32069435 AAAATTGTAC
* *
32069445 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
32069473 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
32069502 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
32069521 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:32072336 original size:28 final size:28
Alignment explanation
Indices: 32072275--32072372 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
32072265 TCACAAATTG
** * *
32072275 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
32072304 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
32072332 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
32072360 GCACTAAGTGTGC
1 GCACTAAGTGTGC
32072373 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:32079915 original size:27 final size:28
Alignment explanation
Indices: 32079859--32079928 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
32079849 AAATTTGTAC
32079859 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
32079887 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
32079914 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
32079929 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:32081468 original size:27 final size:26
Alignment explanation
Indices: 32081426--32081520 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
32081416 GCTCAGTTAT
* * *
32081426 CAGATATTCTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
32081453 CAGATATTGTGGCAGAGCCATCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
32081479 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
*
32081507 CAGATAATGTGGCA
1 CAGATATTGTGGCA
32081521 AAGTCACTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.12
27 44 0.75
28 8 0.14
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:32081714 original size:22 final size:22
Alignment explanation
Indices: 32081686--32081750 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
32081676 GCAAATACGT
*
32081686 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
32081708 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
32081730 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
32081751 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:32082317 original size:105 final size:105
Alignment explanation
Indices: 32082135--32082346 Score: 370
Period size: 105 Copynumber: 2.0 Consensus size: 105
32082125 AGTCACTTGG
* * * *
32082135 CCACCAGGGCAAAATAATCATTTAACACCTTAGGGGCAAAATGGTAATTTTATCCCACAAGGTAT
1 CCACCAAGGCAAAACAATCATTTAACACCTTAGGGGCAAAATGGTAATTTTACCCCACAAGGAAT
32082200 CTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTA
66 CTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTA
* *
32082240 CCACCAAGGCAAAACAGTCATTTAACACCTTAGGGTCAAAATGGTAATTTTACCCCACAAGGAAT
1 CCACCAAGGCAAAACAATCATTTAACACCTTAGGGGCAAAATGGTAATTTTACCCCACAAGGAAT
32082305 CTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTA
66 CTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTA
32082345 CC
1 CC
32082347 CTACAAGGGT
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 101 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (105 bp):
CCACCAAGGCAAAACAATCATTTAACACCTTAGGGGCAAAATGGTAATTTTACCCCACAAGGAAT
CTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTA
Found at i:32082340 original size:27 final size:27
Alignment explanation
Indices: 32082306--32082457 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
32082296 ACAAGGAATC
32082306 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
32082333 TTGGTAATTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
32082360 TCGATAATTCTACCCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
32082387 TCAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
32082414 GCGATAATGCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
32082441 TCAGTAATTCTACCCTA
1 TCGGTAATTCTACCCTA
32082458 TACTTCGGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:32082383 original size:54 final size:54
Alignment explanation
Indices: 32082283--32082457 Score: 244
Period size: 54 Copynumber: 3.3 Consensus size: 54
32082273 GGTCAAAATG
* * * * * **
32082283 GTAATTTTACCCCACAA-GGAATCTCGGTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
*
32082336 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * *
32082390 GTAATTCTACCCTACAGGGGTATTGCGATAATGCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
32082444 GTAATTCTACCCTA
1 GTAATTCTACCCTA
32082458 TACTTCGGTA
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 15 0.14
54 94 0.86
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
Found at i:32082494 original size:27 final size:27
Alignment explanation
Indices: 32082464--32083171 Score: 232
Period size: 27 Copynumber: 26.3 Consensus size: 27
32082454 CCTATACTTC
**
32082464 GGTAATTCCACAAATCAGGGGTATTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
*
32082491 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
*** *
32082518 GGTAATTTTATTGATCAAGGGTATTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
** * ** *
32082545 GGTAATTTTGTAAACCAATGGTATTTC
1 GGTAATTTTACAAATCAGGGGTATTTT
* ** ****
32082572 AGTAATTTTGTAAATC-GAGGGTAAAAC
1 GGTAATTTTACAAATCAG-GGGTATTTT
* * ** ***
32082599 GATAATTCTGTAAATC-GAGGGTAAAAT
1 GGTAATTTTACAAATCAG-GGGTATTTT
* ** * *
32082626 GGTAATTCTATCTTA-CAGGAGTATTTC
1 GGTAATTTTA-CAAATCAGGGGTATTTT
* * *
32082653 AGTAATTTTAAAAATC-GAGGGTATTTC
1 GGTAATTTTACAAATCAG-GGGTATTTT
* * *
32082680 AGTAATTTTGCAAA-CTAAGGGTATTTT
1 GGTAATTTTACAAATC-AGGGGTATTTT
* *
32082707 GGTAATTTTACAAATC-GAGGATATTTA
1 GGTAATTTTACAAATCAG-GGGTATTTT
* *
32082734 GGTAATTTTATAAATC-GGAGGTAGTTT
1 GGTAATTTTACAAATCAGG-GGTATTTT
** * ** *
32082761 GGTAATTTTGTAAACCAATGGTATTTC
1 GGTAATTTTACAAATCAGGGGTATTTT
* ** ***
32082788 AGTAATTTTGTAAATC-GAGGGTAAAAT
1 GGTAATTTTACAAATCAG-GGGTATTTT
* * ****
32082815 GGTAATTCTATAAATC-GAGGGTAAAAC
1 GGTAATTTTACAAATCAG-GGGTATTTT
* * * ***
32082842 GGTAATTCTATAAAT-TGAGGGTAAAAT
1 GGTAATTTTACAAATCAG-GGGTATTTT
* ** * * *
32082869 GGTAATTCTATCTTA-CAAGAGTATTTC
1 GGTAATTTTA-CAAATCAGGGGTATTTT
* *
32082896 GGTAATTTTGCAAATC-GAGGGTATTTC
1 GGTAATTTTACAAATCAG-GGGTATTTT
* * * *
32082923 AGTAATTTTGCAAA-CTGAGGGTA-TTC
1 GGTAATTTTACAAATCAG-GGGTATTTT
* * *
32082949 GGTAATTTTACAAATC-GAAGATATTTA
1 GGTAATTTTACAAATCAG-GGGTATTTT
* * *
32082976 GGTAATTTTATAAATCGGGGGTACTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
* * *
32083003 GGTAATTTTACAAGT-TGAGGGTATTTC
1 GGTAATTTTACAAATCAG-GGGTATTTT
** ** *
32083030 AATAATTTTACAGGTC-GAGGGTATTTC
1 GGTAATTTTACAAATCAG-GGGTATTTT
* * *
32083057 AGTAATTTCACAAATTAGGGGTATTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
32083084 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATC-AGGGGTATTTT
* *
32083111 GATAATTTTACAAACCA-GGGTATTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
*
32083137 GCTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATC-AGGGGTATTTT
32083164 GGTAATTT
1 GGTAATTT
32083172 GGTAAACTAA
Statistics
Matches: 533, Mismatches: 120, Indels: 56
0.75 0.17 0.08
Matches are distributed among these distances:
25 1 0.00
26 51 0.10
27 474 0.89
28 7 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAATCAGGGGTATTTT
Found at i:32083187 original size:53 final size:53
Alignment explanation
Indices: 32083077--32083187 Score: 150
Period size: 53 Copynumber: 2.1 Consensus size: 53
32083067 CAAATTAGGG
* * **
32083077 GTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGG
1 GTATTTTGCTAATTTTACAAACTAGGGGTATTTTGATAATTTGACAAACCAAA
* ** *
32083130 GTATTTTGCTAATTTTACAAACTAGGGGTATTTTGGTAATTTGGTAAACTAAA
1 GTATTTTGCTAATTTTACAAACTAGGGGTATTTTGATAATTTGACAAACCAAA
32083183 GTATT
1 GTATT
32083188 CTAAACAGGG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (53 bp):
GTATTTTGCTAATTTTACAAACTAGGGGTATTTTGATAATTTGACAAACCAAA
Found at i:32085119 original size:6 final size:6
Alignment explanation
Indices: 32085104--32085234 Score: 60
Period size: 6 Copynumber: 21.3 Consensus size: 6
32085094 CAGAACTAGC
* * * *
32085104 ATCAGG ATCAGA ATCAAA ATCAGTG AT-AGA ATCAGA ATCAAAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA ATCAGA ATC--AGA ATCA-G-A
*
32085156 A-CAGA ATCA-A ATCAGA ATCA-A TATCAGGTA A-CAGA ATCAAA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA -ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
32085203 ATCAGT ATCAGGTA A-CA-A ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
32085235 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 12, Indels: 34
0.68 0.08 0.24
Matches are distributed among these distances:
4 2 0.02
5 14 0.15
6 61 0.64
7 10 0.10
8 8 0.08
9 1 0.01
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:32085183 original size:30 final size:31
Alignment explanation
Indices: 32085133--32085234 Score: 163
Period size: 30 Copynumber: 3.3 Consensus size: 31
32085123 TCAGTGATAG
32085133 AATCAGAATCAAAGTATCAGGTAACAGAATC-A
1 AATCAGAATC-AA-TATCAGGTAACAGAATCAA
32085165 AATCAGAATCAATATCAGGTAACAGAATCAA
1 AATCAGAATCAATATCAGGTAACAGAATCAA
*
32085196 AATCAGAATCAGTATCAGGTAACA-AATCAA
1 AATCAGAATCAATATCAGGTAACAGAATCAA
32085226 AATCAGAAT
1 AATCAGAAT
32085235 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
30 32 0.47
31 26 0.38
32 10 0.15
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAATATCAGGTAACAGAATCAA
Found at i:32085433 original size:26 final size:26
Alignment explanation
Indices: 32085371--32085469 Score: 112
Period size: 27 Copynumber: 3.8 Consensus size: 26
32085361 GCTCAGTTAT
* *
32085371 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
32085398 CAGATATTGTGGCAGAG-CACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
32085423 CAGATATTTGTGGCATAGCCACCAGAA
1 CAGATA-TTGTGGCAGAGCCACCAGAA
* * *
32085450 TAGATAATGT-GCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
32085470 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
25 16 0.25
26 20 0.31
27 29 0.45
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:32085654 original size:21 final size:21
Alignment explanation
Indices: 32085628--32085691 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
32085618 GCAAATACGT
*
32085628 TTGGCACACAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
* *
32085649 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CA-G
*
32085671 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
32085692 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.06
21 16 0.46
22 15 0.43
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
TTGGCACAAAGCCATAATCAG
Found at i:32086143 original size:26 final size:26
Alignment explanation
Indices: 32086114--32086216 Score: 143
Period size: 26 Copynumber: 4.0 Consensus size: 26
32086104 AGGGCAAAAT
* * * *
32086114 GGTAATTTTACCCCACAAGGTATCTC
1 GGTAATTCTACCCTACAGGGTATTTC
*
32086140 GGTAATTCTACCCTACAGGGTATTTT
1 GGTAATTCTACCCTACAGGGTATTTC
*
32086166 GGCAATTCTACCCTACAGGGTATTTC
1 GGTAATTCTACCCTACAGGGTATTTC
*
32086192 GATAATTCTACCCTACAGGGTATTT
1 GGTAATTCTACCCTACAGGGTATTT
32086217 ACCCCAGAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (26 bp):
GGTAATTCTACCCTACAGGGTATTTC
Found at i:32086243 original size:24 final size:26
Alignment explanation
Indices: 32086216--32086270 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
32086206 ACAGGGTATT
*
32086216 TACCCCAGAAGGTA-TT-GGTAATTC
1 TACCCCACAAGGTATTTCGGTAATTC
* *
32086240 TACCCTACAGGGTATTTCGGTAATTC
1 TACCCCACAAGGTATTTCGGTAATTC
32086266 TACCC
1 TACCC
32086271 TATATTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 11 0.42
25 2 0.08
26 13 0.50
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (26 bp):
TACCCCACAAGGTATTTCGGTAATTC
Found at i:32086438 original size:27 final size:26
Alignment explanation
Indices: 32086397--32086468 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 26
32086387 TTTGTAAATC
32086397 GGGTAAATGGTAATTCTATAAATCGA
1 GGGTAAATGGTAATTCTATAAATCGA
* *
32086423 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGT-AAATGGTAATTCTATAAATCGA
32086450 GGGTAAATGGTAATTCTAT
1 GGGTAAATGGTAATTCTAT
32086469 CTTACATGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 17 0.41
27 24 0.59
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (26 bp):
GGGTAAATGGTAATTCTATAAATCGA
Found at i:32086546 original size:27 final size:26
Alignment explanation
Indices: 32086482--32086749 Score: 228
Period size: 27 Copynumber: 10.3 Consensus size: 26
32086472 ACATGAGTTA
32086482 GTAATTTTACAAATCGAGGGTA-TTT-
1 GTAATTTTACAAAT-GAGGGTATTTTG
* *
32086507 GTAATTTTGCAAACTGAGGGTATTTCG
1 GTAATTTTACAAA-TGAGGGTATTTTG
*
32086534 GTAATTTTACAAATGA-GGTA-TTTA
1 GTAATTTTACAAATGAGGGTATTTTG
* * *
32086558 GTAATTTTATAAAT-CGGGTACTTTG
1 GTAATTTTACAAATGAGGGTATTTTG
* **
32086583 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAAT-GAGGGTATTTTG
* ** **
32086610 ATAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAAT-GAGGGTATTTTG
*
32086637 GTAATTTCACAAAT-AGGGGTATTTTG
1 GTAATTTTACAAATGA-GGGTATTTTG
32086663 GTAATTTTACAAACT-AGGGGTATTTTG
1 GTAATTTTACAAA-TGA-GGGTATTTTG
* **
32086690 ATAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATGA-GGGTATTTTG
*
32086717 GTAATTTTACAAACT-AGAGTATTTTG
1 GTAATTTTACAAA-TGAGGGTATTTTG
32086743 GTAATTT
1 GTAATTT
32086750 GGTAAACTAA
Statistics
Matches: 204, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
24 19 0.09
25 39 0.19
26 42 0.21
27 104 0.51
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAAATGAGGGTATTTTG
Found at i:32086674 original size:80 final size:77
Alignment explanation
Indices: 32086479--32086749 Score: 266
Period size: 80 Copynumber: 3.5 Consensus size: 77
32086469 CTTACATGAG
* * *
32086479 TTAGTAATTTTACAAATCGAGGGTA-TTT-GTAATTTTGCAAACTGAGGGTATTTCGGTAATTTT
1 TTAGTAATTTTACAAATAG-GGGTATTTTGGTAATTTTACAAAC-GAGGGTATTTCGATAATTTT
32086542 ACAAAT-GA-GGTAT
64 AC-AATCGAGGGTAT
* * * * *
32086555 TTAGTAATTTTATAAAT-CGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTA
1 TTAGTAATTTTACAAATAGGGGTATTTTGGTAATTTTACAA-ACGAGGGTATTTCGATAATTTTA
*
32086619 CAGGTCGAGGGTAT
65 CA-ATCGAGGGTAT
* * *
32086633 TTCAGTAATTTCACAAATAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTT
1 TT-AGTAATTTTACAAATAGGGGTATTTTGGTAATTTTACAAACGA-GGGTATTTCGATAATTTT
* *
32086698 ACAAACCAGGGGTATT
64 ACAATCGA-GGGTA-T
* *
32086714 TTGGTAATTTTACAAACTA-GAGTATTTTGGTAATTT
1 TTAGTAATTTTACAAA-TAGGGGTATTTTGGTAATTT
32086750 GGTAAACTAA
Statistics
Matches: 162, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
74 5 0.03
75 4 0.02
76 48 0.30
77 3 0.02
78 7 0.04
79 17 0.10
80 73 0.45
81 5 0.03
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (77 bp):
TTAGTAATTTTACAAATAGGGGTATTTTGGTAATTTTACAAACGAGGGTATTTCGATAATTTTAC
AATCGAGGGTAT
Found at i:32088603 original size:27 final size:27
Alignment explanation
Indices: 32088571--32088625 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
32088561 ATGTAAAAGA
32088571 ATTAAAAGTCTGGCGCCAGCCTTACTT
1 ATTAAAAGTCTGGCGCCAGCCTTACTT
32088598 ATTAAAAGTCTGGCGCCAGCCTTACTT
1 ATTAAAAGTCTGGCGCCAGCCTTACTT
32088625 A
1 A
32088626 CAGTTTCGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (27 bp):
ATTAAAAGTCTGGCGCCAGCCTTACTT
Found at i:32088733 original size:6 final size:6
Alignment explanation
Indices: 32088719--32088821 Score: 70
Period size: 6 Copynumber: 16.7 Consensus size: 6
32088709 ATCAGAACTT
* * *
32088719 GAATTA GAATCA GAATCA GAATCA G-GTGACA GAATTA GAATCA GAATCA
1 GAATCA GAATCA GAATCA GAATCA GAAT--CA GAATCA GAATCA GAATCA
* *
32088768 GTATCA CGTAA-CA GAATCA AAATCA GAATCA -ATATCA GGTAA-CA GAATCA
1 GAATCA -G-AATCA GAATCA GAATCA GAATCA GA-ATCA -G-AATCA GAATCA
32088818 GAAT
1 GAAT
32088822 GTGAATACAA
Statistics
Matches: 77, Mismatches: 9, Indels: 22
0.71 0.08 0.20
Matches are distributed among these distances:
5 6 0.08
6 59 0.77
7 8 0.10
8 3 0.04
9 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
GAATCA
Found at i:32088757 original size:31 final size:31
Alignment explanation
Indices: 32088719--32088821 Score: 136
Period size: 31 Copynumber: 3.3 Consensus size: 31
32088709 ATCAGAACTT
* *
32088719 GAATTAGAATCAGAATCAGAATCAGGTGACA
1 GAATCAGAATCAGAATCAGAATCAGGTAACA
* * *
32088750 GAATTAGAATCAGAATCAGTATCACGTAACA
1 GAATCAGAATCAGAATCAGAATCAGGTAACA
*
32088781 GAATCAAAATCAGAATCA-ATATCAGGTAACA
1 GAATCAGAATCAGAATCAGA-ATCAGGTAACA
32088812 GAATCAGAAT
1 GAATCAGAAT
32088822 GTGAATACAA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
GAATCAGAATCAGAATCAGAATCAGGTAACA
Found at i:32089021 original size:27 final size:28
Alignment explanation
Indices: 32088958--32089044 Score: 90
Period size: 27 Copynumber: 3.2 Consensus size: 28
32088948 GCTCAGTTAT
* * *
32088958 CAGATA-TTGTGATAGAGTCACCAGATA
1 CAGATATTTGTGACAGAGCCACCAGAAA
* *
32088985 TAAATA-TTGTGACAGAGCCACCA-AAA
1 CAGATATTTGTGACAGAGCCACCAGAAA
* *
32089011 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATATTTGTGACAGAGCCACCAGAAA
32089039 CAGATA
1 CAGATA
32089045 ATGTGGCAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 6 0.12
27 34 0.69
28 9 0.18
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (28 bp):
CAGATATTTGTGACAGAGCCACCAGAAA
Found at i:32089049 original size:27 final size:27
Alignment explanation
Indices: 32089000--32089059 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
32088990 ATTGTGACAG
* *
32089000 AGCCACCAAAACAGATATTTGTGGCAT
1 AGCCACCAAAACAGATATATGTGGCAA
32089027 AGCCACCAGAAACAGATA-ATGTGGCAA
1 AGCCACCA-AAACAGATATATGTGGCAA
32089054 AGCCAC
1 AGCCAC
32089060 TTAACAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (27 bp):
AGCCACCAAAACAGATATATGTGGCAA
Found at i:32089765 original size:27 final size:27
Alignment explanation
Indices: 32089709--32089830 Score: 158
Period size: 27 Copynumber: 4.6 Consensus size: 27
32089699 GGGGCGAAAT
* * * *
32089709 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
32089735 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
32089762 GGTAATTCTACCCTAAAGGGGTATTGT-
1 GGTAATTCTACCCTACAGGGGTATT-TC
* *
32089789 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
32089816 GGTAATTCTACCCTA
1 GGTAATTCTACCCTA
32089831 TATTTCGGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 16 0.19
27 68 0.80
28 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:32089831 original size:27 final size:27
Alignment explanation
Indices: 32089727--32089832 Score: 160
Period size: 27 Copynumber: 3.9 Consensus size: 27
32089717 TACCCCACAA
* *
32089727 GGTATCTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
*
32089754 GGTATTTCGGTAATTCTACCCTAAAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
*
32089781 GGTATTGT-GATAATTCTACCCTATAGG
1 GGTATT-TCGGTAATTCTACCCTATAGG
32089808 GGTATTTCGGTAATTCTACCCTATA
1 GGTATTTCGGTAATTCTACCCTATA
32089833 TTTCGGCAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
26 1 0.01
27 70 0.97
28 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTATAGG
Found at i:32089898 original size:27 final size:27
Alignment explanation
Indices: 32089831--32090303 Score: 221
Period size: 27 Copynumber: 17.5 Consensus size: 27
32089821 TTCTACCCTA
* * * *
32089831 TATTTCGGCAATTCTACAAATTAGGGG
1 TATTTTGGTAATTTTACAAATCAGGGG
*
32089858 TATTTTGGTAATTTTACAAACCAGGGG
1 TATTTTGGTAATTTTACAAATCAGGGG
***
32089885 TATTTTGGTAATTTTATTGATC-GAGGG
1 TATTTTGGTAATTTTACAAATCAG-GGG
** * *
32089912 TATTTTGGTAATTTTGTAAACCAAGGG
1 TATTTTGGTAATTTTACAAATCAGGGG
** * **
32089939 TATTTCAGCAATTTTGTAAATC-GAGGG
1 TATTTTGGTAATTTTACAAATCAG-GGG
**** * **
32089966 TAAAACGGTAATTCTGTAAATC-GAGGG
1 TATTTTGGTAATTTTACAAATCAG-GGG
*** * *** *
32089993 TAAAATGGTAATTCTA-TTTTACAGGAG
1 TATTTTGGTAATTTTACAAAT-CAGGGG
** *
32090020 TATTTCAGTAATTTTAAAAATC-GAGGG
1 TATTTTGGTAATTTTACAAATCAG-GGG
** ** * *
32090047 TATTTCAGTAATTTTGTAAA-CTAAGCG
1 TATTTTGGTAATTTTACAAATC-AGGGG
*
32090074 TATTTTGGTAATTTTACAAATC-GAGGA
1 TATTTTGGTAATTTTACAAATCAG-GGG
* * *
32090101 TATTTAGGTAATTTTATAAATCGGGGG
1 TATTTTGGTAATTTTACAAATCAGGGG
* *
32090128 TACTTTGGTAATTTTACAAGTC-GAGGG
1 TATTTTGGTAATTTTACAAATCAG-GGG
*** ** **
32090155 TATTTCAATAATTTTACAGGTC-GAAAG
1 TATTTTGGTAATTTTACAAATCAG-GGG
** * *
32090182 TATTTCAGTAATTTCACAAATCATGGG
1 TATTTTGGTAATTTTACAAATCAGGGG
32090209 TATTTTGGTAATTTTACAAA-CTAGGGG
1 TATTTTGGTAATTTTACAAATC-AGGGG
* * *
32090236 TATTTTGATAATTTAACAAACCAGGGG
1 TATTTTGGTAATTTTACAAATCAGGGG
32090263 TATTTTGGTAATTTTACAAA-CTAGGGG
1 TATTTTGGTAATTTTACAAATC-AGGGG
32090290 TATTTTGGTAATTT
1 TATTTTGGTAATTT
32090304 GGTAAATTAA
Statistics
Matches: 348, Mismatches: 81, Indels: 34
0.75 0.17 0.07
Matches are distributed among these distances:
26 7 0.02
27 336 0.97
28 5 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
TATTTTGGTAATTTTACAAATCAGGGG
Found at i:32092170 original size:27 final size:27
Alignment explanation
Indices: 32092138--32092192 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
32092128 ATGTAAAAGA
32092138 ATTAAAAGTCTGGCGCCAGCCTTACTT
1 ATTAAAAGTCTGGCGCCAGCCTTACTT
32092165 ATTAAAAGTCTGGCGCCAGCCTTACTT
1 ATTAAAAGTCTGGCGCCAGCCTTACTT
32092192 A
1 A
32092193 CAGTTTCGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (27 bp):
ATTAAAAGTCTGGCGCCAGCCTTACTT
Found at i:32092300 original size:6 final size:6
Alignment explanation
Indices: 32092286--32092388 Score: 79
Period size: 6 Copynumber: 16.7 Consensus size: 6
32092276 ATCAGAACTT
* *
32092286 GAATTA GAATCA GAATCA GAATCA G-GTGACA GAATCA GAATCA GAATCA
1 GAATCA GAATCA GAATCA GAATCA GAAT--CA GAATCA GAATCA GAATCA
* *
32092335 GTATCA CGTAA-CA GAATCA AAATCA GAATCA -ATATCA GGTAA-CA GAATCA
1 GAATCA -G-AATCA GAATCA GAATCA GAATCA GA-ATCA -G-AATCA GAATCA
32092385 GAAT
1 GAAT
32092389 GTGAATACAA
Statistics
Matches: 79, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
5 6 0.08
6 61 0.77
7 8 0.10
8 3 0.04
9 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
GAATCA
Found at i:32092326 original size:31 final size:31
Alignment explanation
Indices: 32092286--32092388 Score: 145
Period size: 31 Copynumber: 3.3 Consensus size: 31
32092276 ATCAGAACTT
* *
32092286 GAATTAGAATCAGAATCAGAATCAGGTGACA
1 GAATCAGAATCAGAATCAGAATCAGGTAACA
* *
32092317 GAATCAGAATCAGAATCAGTATCACGTAACA
1 GAATCAGAATCAGAATCAGAATCAGGTAACA
*
32092348 GAATCAAAATCAGAATCA-ATATCAGGTAACA
1 GAATCAGAATCAGAATCAGA-ATCAGGTAACA
32092379 GAATCAGAAT
1 GAATCAGAAT
32092389 GTGAATACAA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (31 bp):
GAATCAGAATCAGAATCAGAATCAGGTAACA
Found at i:32092349 original size:25 final size:24
Alignment explanation
Indices: 32092291--32092365 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 24
32092281 AACTTGAATT
32092291 AGAATCAGAATCAGAATCAGGTGA-C
1 AGAATCAGAATCAGAATCA-GT-ATC
32092316 AGAATCAGAATCAGAATCAGTATC
1 AGAATCAGAATCAGAATCAGTATC
* *
32092340 ACGTAA-CAGAATCAAAATCAGAATC
1 A-G-AATCAGAATCAGAATCAGTATC
32092365 A
1 A
32092366 ATATCAGGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
23 1 0.02
24 4 0.09
25 38 0.84
26 2 0.04
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTATC
Done.