Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 195 of 349
Found at i:63218220 original size:24 final size:24
Alignment explanation
Indices: 63218188--63218241 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
63218178 TTACACGAAC
63218188 ACATATATCGGATCCTATGTCATG
1 ACATATATCGGATCCTATGTCATG
*
63218212 ACATATATCGGATCTTATGTCATG
1 ACATATATCGGATCCTATGTCATG
63218236 ACATAT
1 ACATAT
63218242 GTATCCTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (24 bp):
ACATATATCGGATCCTATGTCATG
Found at i:63229942 original size:27 final size:27
Alignment explanation
Indices: 63229912--63230406 Score: 695
Period size: 27 Copynumber: 18.3 Consensus size: 27
63229902 TACTGAAATG
** *
63229912 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * *
63229939 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
63229966 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
63229993 CCCTCGATTTATAGAATTATCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
63230020 CCCTCAATTTACAGAATTACTATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
63230047 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
63230074 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
63230101 CCCTCGATCTACAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
63230128 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
63230155 CCTTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
63230182 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
63230209 CCCTCGATTTACAGAATTATCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
**
63230236 CCCTTAATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
63230263 CCCTCAATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
63230290 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
**
63230317 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
63230344 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
63230371 CCCTC-AGTTTACAAAATTATCATTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
63230398 CCCTCGATT
1 CCCTCGATT
63230407 GTGAAATTAC
Statistics
Matches: 418, Mismatches: 48, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 416 1.00
28 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:63230428 original size:27 final size:26
Alignment explanation
Indices: 63230398--63230566 Score: 119
Period size: 27 Copynumber: 6.3 Consensus size: 26
63230388 TATCATTTTA
**
63230398 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
*
63230425 CCCTG-TAG-GATAGAATTACCAAAATAC
1 CCCTGATTGTG--A-AATTACCAAAATAC
* *
63230452 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
63230479 CCCTAGTTTGTGAAATTACCGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* * **
63230506 CACTGGTTTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* * *
63230533 CTC-AATTTGTAAAATTACCAAAATAC
1 CCCTGA-TTGTGAAATTACCAAAATAC
63230559 CCCTGATT
1 CCCTGATT
63230567 TACAAAATTA
Statistics
Matches: 116, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
24 1 0.01
25 2 0.02
26 23 0.20
27 86 0.74
28 2 0.02
29 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCAAAATAC
Found at i:63230496 original size:54 final size:53
Alignment explanation
Indices: 63230438--63230562 Score: 160
Period size: 54 Copynumber: 2.3 Consensus size: 53
63230428 TGTAGGATAG
* *
63230438 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCC-AATTTGTAA
* * * * ** *
63230492 AATTACCGAAATACCACTGGTTTGTGAAATTACTGAAATACCTCAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCAATTTGTAA
63230545 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
63230563 GATTTACAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
53 23 0.38
54 37 0.62
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (53 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCAATTTGTAA
Found at i:63230575 original size:27 final size:26
Alignment explanation
Indices: 63230438--63230576 Score: 143
Period size: 27 Copynumber: 5.2 Consensus size: 26
63230428 TGTAGGATAG
63230438 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTA-TTTGTAA
*
63230465 AATTACCAAAATACCCCTAGTTTGTGA
1 AATTACCAAAATACCCCTA-TTTGTAA
* * * *
63230492 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCT-ATTTGTAA
** * *
63230519 AATTACTGAAATACCTCAATTTGTAA
1 AATTACCAAAATACCCCTATTTGTAA
**
63230545 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCT-ATTTGTAA
63230572 AATTA
1 AATTA
63230577 TAGAAATACC
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 20 0.21
27 75 0.79
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCCTATTTGTAA
Found at i:63230583 original size:27 final size:27
Alignment explanation
Indices: 63230553--63230642 Score: 103
Period size: 27 Copynumber: 3.3 Consensus size: 27
63230543 AAAATTACCA
*
63230553 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCCTTGATTTACAAAATTATAG
63230580 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTGA-TTTAC--AAAATTATAG
* *
63230609 AAATACCATTGGTTTACAAAATTACT-G
1 AAATACCCTTGATTTACAAAATTA-TAG
63230636 AAATACC
1 AAATACC
63230643 TTTGGTTTGT
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
27 27 0.49
28 7 0.13
29 21 0.38
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATACCCTTGATTTACAAAATTATAG
Found at i:63230756 original size:27 final size:27
Alignment explanation
Indices: 63230704--63230768 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
63230694 ATCCCTAATA
63230704 GGTAAAATGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
63230731 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
63230758 GGTAAAATGAC
1 GGTAAAATGAC
63230769 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:63231616 original size:25 final size:24
Alignment explanation
Indices: 63231578--63231647 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
63231568 AGGAAGTGCT
* *
63231578 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
63231602 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
63231627 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
63231648 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:63231660 original size:24 final size:23
Alignment explanation
Indices: 63231578--63231674 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 23
63231568 AGGAAGTGCT
* * *
63231578 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
63231602 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
63231627 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
63231651 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
63231675 ATGTTAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.06
24 13 0.21
25 46 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:63231842 original size:42 final size:42
Alignment explanation
Indices: 63231795--63231886 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
63231785 TAGTCTCCCC
* *
63231795 AAATGGGCTTGTATACATTCATTAACATTATATGTGATATTG
1 AAATGGGCTTGCATACATTCATTAACATTACATGTGATATTG
*
63231837 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTAACATTACATGTGATATTG
63231879 AAATGGGC
1 AAATGGGC
63231887 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTAACATTACATGTGATATTG
Found at i:63231945 original size:31 final size:31
Alignment explanation
Indices: 63231910--63232111 Score: 334
Period size: 31 Copynumber: 6.5 Consensus size: 31
63231900 CGTTTACAGT
*
63231910 AAAGGCTTCGGCCCAGTGGTATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
63231941 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
63231972 AAAGGCTTCGGCCCAGTGATGTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
63232003 AAAGGCTTCGGCCTAGTGATGTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
63232034 AAAGGCTTCGGCTCAGTGATGTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
63232065 AAAGGCTTCGGCCC-GTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
63232095 AAAGGCTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
63232112 AACCGTTAAA
Statistics
Matches: 162, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
30 28 0.17
31 134 0.83
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:63238420 original size:53 final size:54
Alignment explanation
Indices: 63238241--63238452 Score: 241
Period size: 55 Copynumber: 3.9 Consensus size: 54
63238231 GGGTTTAAGA
* * *
63238241 ATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCTAGG
1 ATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTTCATAAGGCAAGG
* * *
63238296 ATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-ATAAGGC-AAGG
* * *
63238352 -TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGCAAGG
* * * * *
63238404 ATACCATGTAAGACCATGTCGAGACATGGCAATGGTATGTTTCAAAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGG
63238453 ATCATGGTAA
Statistics
Matches: 132, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
52 4 0.03
53 43 0.33
54 18 0.14
55 64 0.48
56 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (54 bp):
ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGCAAGG
Found at i:63238446 original size:108 final size:110
Alignment explanation
Indices: 63238244--63238446 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 110
63238234 TTTAAGAATA
* *
63238244 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCTAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
63238309 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* *
63238354 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* * *
63238416 ACCATGTCGAGACATGGCAATGGTATGTTTC
65 ACCATGTCAAGACATGGCAATGATAAGTTTC
63238447 AAAAGGATCA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:63242987 original size:46 final size:46
Alignment explanation
Indices: 63242937--63243109 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
63242927 TGGTTAAGCA
*
63242937 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* * * * * *
63242983 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAA--A--CG
* *
63243030 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* * *
63243076 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTA
63243110 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.57
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
Found at i:63243093 original size:93 final size:93
Alignment explanation
Indices: 63242934--63243104 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
63242924 GGATGGTTAA
* * *
63242934 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAGT
63242999 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
63243027 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAGT
*
63243092 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
63243105 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:63246322 original size:11 final size:11
Alignment explanation
Indices: 63246306--63246330 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
63246296 AGTGATAGTG
63246306 TGACGAGTTGT
1 TGACGAGTTGT
63246317 TGACGAGTTGT
1 TGACGAGTTGT
63246328 TGA
1 TGA
63246331 TAATCTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.08, G:0.36, T:0.36
Consensus pattern (11 bp):
TGACGAGTTGT
Found at i:63251096 original size:12 final size:12
Alignment explanation
Indices: 63251081--63251129 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
63251071 AAGTTTTCAC
*
63251081 TTCAATTTTTTT
1 TTCAAATTTTTT
*
63251093 TTCAGA-TTTTT
1 TTCAAATTTTTT
*
63251104 TTCGAATTTTTT
1 TTCAAATTTTTT
63251116 TTCAAATTTTTT
1 TTCAAATTTTTT
63251128 TT
1 TT
63251130 AACTTGTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.69
Consensus pattern (12 bp):
TTCAAATTTTTT
Found at i:63254692 original size:37 final size:37
Alignment explanation
Indices: 63254560--63254705 Score: 116
Period size: 37 Copynumber: 3.9 Consensus size: 37
63254550 ACAGAACATG
* * *
63254560 TATTAAAGGTGTCTAAACTAAGACATATTTAAACAT-A
1 TATTAAAGTTGTCTAAACTATGACATAATTAAAC-TCA
* * * *
63254597 TATTTAAGATGTCCTAAACTATGACATAATTAAAAACCCT
1 TATTAAAGTTGT-CTAAACTATGACATAATT--AAACTCA
* * * *
63254637 TATTATA-TATGTCCAAATTATGTCATAATTAAACTCA
1 TATTAAAGT-TGTCTAAACTATGACATAATTAAACTCA
* *
63254674 TATTAAAGTTGTCTAAATTATGACTTAATTAA
1 TATTAAAGTTGTCTAAACTATGACATAATTAA
63254706 TAACTTAAAC
Statistics
Matches: 85, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
37 41 0.48
38 17 0.20
39 15 0.18
40 12 0.14
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.37
Consensus pattern (37 bp):
TATTAAAGTTGTCTAAACTATGACATAATTAAACTCA
Found at i:63259270 original size:16 final size:17
Alignment explanation
Indices: 63259249--63259287 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
63259239 ACTGAAACGC
*
63259249 CCCAAAAATCTCGAAA-
1 CCCAAAAATCCCGAAAT
63259265 CCCAAAAATCCCGAAAT
1 CCCAAAAATCCCGAAAT
63259282 CCCAAA
1 CCCAAA
63259288 CTTTCTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.49, C:0.36, G:0.05, T:0.10
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:63260835 original size:29 final size:29
Alignment explanation
Indices: 63260800--63260855 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
63260790 AATGTGACTG
63260800 GGCCTAACGGGCCATATAAATGTGATTTA
1 GGCCTAACGGGCCATATAAATGTGATTTA
* *
63260829 GGCCTAATGGGCCATATGAATGTGATT
1 GGCCTAACGGGCCATATAAATGTGATT
63260856 GGGCTTAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (29 bp):
GGCCTAACGGGCCATATAAATGTGATTTA
Found at i:63262734 original size:13 final size:13
Alignment explanation
Indices: 63262716--63262740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63262706 GTGTCTTCTC
63262716 AAGGCTTGGATCG
1 AAGGCTTGGATCG
63262729 AAGGCTTGGATC
1 AAGGCTTGGATC
63262741 TTTGGAGCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (13 bp):
AAGGCTTGGATCG
Found at i:63263281 original size:28 final size:28
Alignment explanation
Indices: 63263249--63263313 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
63263239 ATTTACTATA
*
63263249 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
63263277 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
63263305 ATACCCCTA
1 ATACCCCTA
63263314 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:63263477 original size:27 final size:28
Alignment explanation
Indices: 63263419--63263508 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
63263409 AGGAAGCGTC
*
63263419 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
63263447 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
63263474 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
63263503 CTGGTG
1 CTGGTG
63263509 ACTCTATCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:63263519 original size:29 final size:28
Alignment explanation
Indices: 63263431--63263519 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 28
63263421 GGTGGCTATG
* * * *
63263431 CCACAAATTATCTGTTCTGGTGGCCCTG
1 CCACAAAATATCTGTTCTGGTGACACTA
** * *
63263459 CCAC-GTATATCTGTTCTGGTGGCACTG
1 CCACAAAATATCTGTTCTGGTGACACTA
*
63263486 CCACAAAATATCTGTATCTGGTGACTCTA
1 CCACAAAATATCTGT-TCTGGTGACACTA
*
63263515 TCACA
1 CCACA
63263520 TTTTCTGTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
27 23 0.47
28 12 0.24
29 14 0.29
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.31
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGACACTA
Found at i:63263527 original size:55 final size:56
Alignment explanation
Indices: 63263419--63263533 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
63263409 AGGAAGCGTC
* * * *
63263419 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTACCACATATATCTGTAT
* * *
63263474 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTATCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTACCACATATATCTGTAT
63263530 CTGG
1 CTGG
63263534 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.60
56 19 0.38
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTACCACATATATCTGTAT
Found at i:63264624 original size:11 final size:10
Alignment explanation
Indices: 63264596--63264629 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
63264586 AGCCTGTAAG
63264596 TATTCTGAAT
1 TATTCTGAAT
*
63264606 TTTTCTGAAT
1 TATTCTGAAT
63264616 ATATTCTGAAT
1 -TATTCTGAAT
63264627 TAT
1 TAT
63264630 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:63268018 original size:79 final size:78
Alignment explanation
Indices: 63267916--63268138 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 78
63267906 GCTCCTCGTT
* *
63267916 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
63267981 ATTTAGTATCTCGCA
64 AATTAGTATCTCGCA
*
63267996 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
63268059 AATTAGTATCTCGCA
64 AATTAGTATCTCGCA
* * * * *
63268074 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
63268137 GA
63 GA
63268139 CATCATTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 48 0.38
79 57 0.45
80 20 0.16
81 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTATCTCGCA
Found at i:63268030 original size:39 final size:40
Alignment explanation
Indices: 63267916--63268138 Score: 275
Period size: 39 Copynumber: 5.7 Consensus size: 40
63267906 GCTCCTCGTT
* *
63267916 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* *
63267956 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
63267996 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
63268035 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
63268074 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
63268115 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63268139 CATCATTCAA
Statistics
Matches: 168, Mismatches: 7, Indels: 17
0.88 0.04 0.09
Matches are distributed among these distances:
38 2 0.01
39 91 0.54
40 64 0.38
41 11 0.07
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:63270426 original size:25 final size:25
Alignment explanation
Indices: 63270392--63270442 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
63270382 TCCGTACGCA
63270392 CGGGGATAAAGTGAGCCGACTTAGT
1 CGGGGATAAAGTGAGCCGACTTAGT
63270417 CGGGGATAAAGTGAGCCGACTTAGT
1 CGGGGATAAAGTGAGCCGACTTAGT
63270442 C
1 C
63270443 AGTCTATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.18, G:0.35, T:0.20
Consensus pattern (25 bp):
CGGGGATAAAGTGAGCCGACTTAGT
Found at i:63275657 original size:79 final size:78
Alignment explanation
Indices: 63275555--63275777 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
63275545 GCTCCTCGTT
* *
63275555 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
63275620 ATTTAGTATCTCGCA
64 AATTAGTATCTCGCA
* *
63275635 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGTACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
63275698 AATTAGTATCTCGCA
64 AATTAGTATCTCGCA
* * * * *
63275713 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
63275776 GA
63 GA
63275778 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 48 0.39
79 56 0.45
80 19 0.15
81 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTATCTCGCA
Found at i:63275669 original size:39 final size:40
Alignment explanation
Indices: 63275555--63275777 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
63275545 GCTCCTCGTT
* *
63275555 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* *
63275595 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
63275635 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
63275674 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
63275713 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
63275754 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63275778 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:63279625 original size:29 final size:29
Alignment explanation
Indices: 63279583--63279651 Score: 129
Period size: 29 Copynumber: 2.4 Consensus size: 29
63279573 TCGAACACCT
*
63279583 AGTTGTTGGACTGAACTGGGGGAGCGACA
1 AGTTCTTGGACTGAACTGGGGGAGCGACA
63279612 AGTTCTTGGACTGAACTGGGGGAGCGACA
1 AGTTCTTGGACTGAACTGGGGGAGCGACA
63279641 AGTTCTTGGAC
1 AGTTCTTGGAC
63279652 CTGAGTTGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.23, C:0.16, G:0.38, T:0.23
Consensus pattern (29 bp):
AGTTCTTGGACTGAACTGGGGGAGCGACA
Found at i:63281956 original size:27 final size:27
Alignment explanation
Indices: 63281926--63281988 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
63281916 ATTTACTAGA
*
63281926 ATACCCCTATGTATGCAAATTACCATT
1 ATACCCCTATGTATGCAAATGACCATT
*
63281953 ATACCCCTATGTATGCAAATGACCTTT
1 ATACCCCTATGTATGCAAATGACCATT
63281980 ATACCCCTA
1 ATACCCCTA
63281989 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (27 bp):
ATACCCCTATGTATGCAAATGACCATT
Found at i:63282152 original size:27 final size:28
Alignment explanation
Indices: 63282094--63282183 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
63282084 AGGAAGCGTC
*
63282094 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
63282122 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
63282149 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
63282178 CTGGTG
1 CTGGTG
63282184 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:63282194 original size:29 final size:28
Alignment explanation
Indices: 63282104--63282194 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
63282094 CTGGTGGCTA
* * *
63282104 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
63282132 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
63282159 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
63282188 TGTCACA
1 TGCCACA
63282195 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:63282202 original size:55 final size:56
Alignment explanation
Indices: 63282094--63282208 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
63282084 AGGAAGCGTC
* * *
63282094 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
63282149 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
63282205 CTGG
1 CTGG
63282209 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:63282672 original size:22 final size:22
Alignment explanation
Indices: 63282647--63282690 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
63282637 TTTAATTATT
63282647 TTATGGTT-TTGTTTTACTTTTA
1 TTAT-GTTATTGTTTTACTTTTA
* *
63282669 TTATTTTATTTTTTTACTTTTA
1 TTATGTTATTGTTTTACTTTTA
63282691 AAACTATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.73
Consensus pattern (22 bp):
TTATGTTATTGTTTTACTTTTA
Found at i:63285976 original size:19 final size:19
Alignment explanation
Indices: 63285952--63285990 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
63285942 AAATAGTAGC
*
63285952 TCATCCCTATAAACAATAT
1 TCATCCATATAAACAATAT
*
63285971 TCATCCATATAAACAGTAT
1 TCATCCATATAAACAATAT
63285990 T
1 T
63285991 TATGCCCGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.33
Consensus pattern (19 bp):
TCATCCATATAAACAATAT
Found at i:63286191 original size:47 final size:48
Alignment explanation
Indices: 63286128--63286233 Score: 135
Period size: 47 Copynumber: 2.2 Consensus size: 48
63286118 GATGATGGAT
* ***
63286128 AGTAAGCTC-TATTGAGCTAAAACGGTAAGCTGTGACGAGCTGAAAAC
1 AGTAAGCTCTTATTGAGCTAAAACAGTAAGCTCCAACGAGCTGAAAAC
* * *
63286175 ATTAAGCTCTTA-TGAGCTGAAACAGTAAGCTCCAACGAGCTGAAAAT
1 AGTAAGCTCTTATTGAGCTAAAACAGTAAGCTCCAACGAGCTGAAAAC
63286222 AGTAAGCTCTTA
1 AGTAAGCTCTTA
63286234 CAAGCTGATA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
47 48 0.96
48 2 0.04
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (48 bp):
AGTAAGCTCTTATTGAGCTAAAACAGTAAGCTCCAACGAGCTGAAAAC
Found at i:63286203 original size:23 final size:24
Alignment explanation
Indices: 63286128--63286241 Score: 108
Period size: 24 Copynumber: 4.8 Consensus size: 24
63286118 GATGATGGAT
*
63286128 AGTAAGCTC-TATTGAGCT-AAAAC
1 AGTAAGCTCTTA-CGAGCTGAAAAC
* * *
63286151 GGTAAGCTGTGACGAGCTGAAAAC
1 AGTAAGCTCTTACGAGCTGAAAAC
* *
63286175 ATTAAGCTCTTATGAGCTG-AAAC
1 AGTAAGCTCTTACGAGCTGAAAAC
** *
63286198 AGTAAGCTCCAACGAGCTGAAAAT
1 AGTAAGCTCTTACGAGCTGAAAAC
*
63286222 AGTAAGCTCTTACAAGCTGA
1 AGTAAGCTCTTACGAGCTGA
63286242 TATATAGGTA
Statistics
Matches: 71, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
23 31 0.44
24 40 0.56
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (24 bp):
AGTAAGCTCTTACGAGCTGAAAAC
Found at i:63286265 original size:26 final size:24
Alignment explanation
Indices: 63286126--63286265 Score: 99
Period size: 24 Copynumber: 5.8 Consensus size: 24
63286116 AAGATGATGG
*
63286126 ATAGTAAGCTC-TATTGAGCT-AAA
1 ATAGTAAGCTCTTA-CGAGCTGAAA
** * *
63286149 ACGGTAAGCTGTGACGAGCTGAAA
1 ATAGTAAGCTCTTACGAGCTGAAA
* * *
63286173 ACATTAAGCTCTTATGAGCTG-AA
1 ATAGTAAGCTCTTACGAGCTGAAA
* **
63286196 ACAGTAAGCTCCAACGAGCTGAAA
1 ATAGTAAGCTCTTACGAGCTGAAA
* *
63286220 ATAGTAAGCTCTTACAAGCTGATAT
1 ATAGTAAGCTCTTACGAGCTGA-AA
63286245 ATAGGTAAGCTCATT-CGAGCT
1 ATA-GTAAGCTC-TTACGAGCT
63286266 ACGGTGAGTC
Statistics
Matches: 91, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
23 32 0.35
24 40 0.44
25 4 0.04
26 13 0.14
27 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (24 bp):
ATAGTAAGCTCTTACGAGCTGAAA
Found at i:63290140 original size:45 final size:45
Alignment explanation
Indices: 63290079--63290301 Score: 244
Period size: 45 Copynumber: 5.0 Consensus size: 45
63290069 TAGGATTTTG
* *
63290079 ATATGTGTTTTTGTGTAATACCACGTCTGGGACGATGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGAT
* * *
63290124 ATATGTGTTTTCGTGTAAGACCACGTTTAGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGAT
* * *
63290169 ATATGTGTTTTCGTGTAAGACTACGTCTGGGACGTTGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGAT
* * * *
63290214 ATATGTGGTTACGTGTAATACCATGTCTGGGAC-ATCGGCATCG-T
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGAT-GGCATCGAT
* *
63290258 AT-T-TG-ATTCGTGTAAGA-CACTGTTTGGGAC-AGTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCAC-GTCTGGGACGA-TGGCATCGAT
63290300 AT
1 AT
63290302 GAGATAGCAT
Statistics
Matches: 153, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
40 2 0.01
41 25 0.16
42 6 0.04
43 1 0.01
44 4 0.03
45 115 0.75
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGAT
Found at i:63292082 original size:10 final size:8
Alignment explanation
Indices: 63292069--63292095 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
63292059 GAATATGACT
63292069 TGTGTGAA
1 TGTGTGAA
63292077 TGTGTGAA
1 TGTGTGAA
63292085 TGTGTGAA
1 TGTGTGAA
63292093 TGT
1 TGT
63292096 TTAGAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (8 bp):
TGTGTGAA
Found at i:63295207 original size:47 final size:47
Alignment explanation
Indices: 63295129--63295866 Score: 1172
Period size: 47 Copynumber: 15.6 Consensus size: 47
63295119 CCCTTCGGGA
* * * * * *
63295129 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63295176 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63295223 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63295270 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63295317 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGG-
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63295365 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63295412 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63295459 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63295508 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63295555 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63295602 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63295651 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63295698 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63295745 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63295794 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63295841 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
63295867 CACAATTATC
Statistics
Matches: 642, Mismatches: 40, Indels: 18
0.92 0.06 0.03
Matches are distributed among these distances:
46 35 0.05
47 428 0.67
48 8 0.01
49 171 0.27
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:63295511 original size:96 final size:94
Alignment explanation
Indices: 63295129--63295866 Score: 1172
Period size: 96 Copynumber: 7.8 Consensus size: 94
63295119 CCCTTCGGGA
* * * * * * * *
63295129 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
63295194 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
63295223 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
63295288 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
63295317 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGG-CTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
63295381 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
63295412 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
63295477 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
63295508 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
63295573 TTTCACATTCATCACATCGGCCATTGGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
63295602 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
63295667 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
63295698 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
63295763 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
63295794 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
63295859 ATTCACAT
66 TTTCACAT
63295867 CACAATTATC
Statistics
Matches: 599, Mismatches: 36, Indels: 18
0.92 0.06 0.03
Matches are distributed among these distances:
93 36 0.06
94 205 0.34
95 54 0.09
96 304 0.51
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:63295623 original size:143 final size:143
Alignment explanation
Indices: 63295129--63295866 Score: 1311
Period size: 143 Copynumber: 5.2 Consensus size: 143
63295119 CCCTTCGGGA
* * * * * * * *
63295129 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * *
63295192 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
63295257 TCGGCTATTAGGC
131 TCGGCTATTAGGC
63295270 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
63295335 ACTTTCACATTCATCACATTGGCCATTCGG-CTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
63295399 TCGGCTATTAGGC
131 TCGGCTATTAGGC
63295412 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
63295477 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
63295542 TCGGCTATTAGGC
131 TCGGCTATTAGGC
*
63295555 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
63295620 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
63295685 TCGGCTATTAGGC
131 TCGGCTATTAGGC
*
63295698 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
63295763 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
*
63295828 TCGGCCATTAGGC
131 TCGGCTATTAGGC
* *
63295841 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
63295867 CACAATTATC
Statistics
Matches: 579, Mismatches: 15, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
141 47 0.08
142 141 0.24
143 391 0.68
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCTATTAGGC
Found at i:63299234 original size:34 final size:34
Alignment explanation
Indices: 63299191--63299258 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
63299181 ATAAAGTAAA
63299191 GAAAACAAAGAGGAAGGAAGGCTCATCTTTCATC
1 GAAAACAAAGAGGAAGGAAGGCTCATCTTTCATC
63299225 GAAAACAAAGAGGAAGGAAGGCTCATCTTTCATC
1 GAAAACAAAGAGGAAGGAAGGCTCATCTTTCATC
63299259 TCCTTCATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (34 bp):
GAAAACAAAGAGGAAGGAAGGCTCATCTTTCATC
Found at i:63300542 original size:27 final size:28
Alignment explanation
Indices: 63300457--63300555 Score: 137
Period size: 27 Copynumber: 3.5 Consensus size: 28
63300447 TGTTGATTTC
* * * *
63300457 AGCACTAAGTGTGCGGGTTTAAATTGTAC
1 AGCACTAAGTGTGCGAGTTT-GATTATAT
63300486 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
63300514 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
63300541 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
63300556 GACTTAATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.37
28 22 0.34
29 19 0.29
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:63300566 original size:27 final size:27
Alignment explanation
Indices: 63300486--63300568 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
63300476 TAAATTGTAC
* *
63300486 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
63300514 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
63300541 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
63300568 A
1 A
63300569 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:63300569 original size:29 final size:27
Alignment explanation
Indices: 63300457--63300569 Score: 100
Period size: 28 Copynumber: 4.0 Consensus size: 27
63300447 TGTTGATTTC
** * *
63300457 AGCACTAAGTGTGCGGGTTTAAATTGTAC
1 AGCACTAAGTGTGC-GACTT-AATTATAT
* *
63300486 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
63300514 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
63300541 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
63300570 TTTTGAATCA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.38
29 22 0.30
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:63305382 original size:14 final size:15
Alignment explanation
Indices: 63305360--63305388 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
63305350 TTATATTGTG
63305360 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
63305375 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
63305389 CTTTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:63306599 original size:26 final size:26
Alignment explanation
Indices: 63306569--63306621 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
63306559 CCAGCACACC
*
63306569 AATAACGCAGCAAAGCTGCCAGTAAT
1 AATAACGCAGCAAAGCTGCCAGAAAT
* *
63306595 AATAATGCAGCATAGCTGCCAGAAAT
1 AATAACGCAGCAAAGCTGCCAGAAAT
63306621 A
1 A
63306622 GTAAATATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGCCAGAAAT
Found at i:63306846 original size:27 final size:27
Alignment explanation
Indices: 63306814--63307012 Score: 254
Period size: 27 Copynumber: 7.4 Consensus size: 27
63306804 GGTATAATCA
* * *
63306814 TCATTTTACCATACAGGGGTATTATGT
1 TCATTTTACCCTACAGGGGTATTACGG
* * * * *
63306841 TTATTTTATCCTATAGGGGCATTACAG
1 TCATTTTACCCTACAGGGGTATTACGG
63306868 TCATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
63306895 TCATTTTACCTTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
63306922 TCATTTTACCCTACAGGGGCATTACCG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
63306949 TCATTTTACCCTAAAGTGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
63306976 TCATTTTACCCTATAGGGTTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
63307003 TTATTTTACC
1 TCATTTTACC
63307013 TATTTTAGGG
Statistics
Matches: 147, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACGG
Found at i:63306901 original size:81 final size:80
Alignment explanation
Indices: 63306814--63307015 Score: 287
Period size: 81 Copynumber: 2.5 Consensus size: 80
63306804 GGTATAATCA
* *
63306814 TCATTTTACCATACAGGGGTATTATGTTTATTTTATCCTATAGGGGCATTACAGTCATTTTACCC
1 TCATTTTACCATACAGGGGTATTACGGTTATTTTA-CCTATAGGGGCATTACAGTCATTTTACCC
*
63306879 TACAGGGGTATTACGG
65 TAAAGGGGTATTACGG
* * * *
63306895 TCATTTTACCTTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACCGTCATTTTACCC
1 TCATTTTACCATACAGGGGTATTACGGTTATTTTA-CCTATAGGGGCATTACAGTCATTTTACCC
*
63306960 TAAAGTGGTATTACGG
65 TAAAGGGGTATTACGG
* * *
63306976 TCATTTTACCCTATAGGGTTATTACGGTTATTTTACCTAT
1 TCATTTTACCATACAGGGGTATTACGGTTATTTTACCTAT
63307016 TTTAGGGTTT
Statistics
Matches: 107, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 4 0.04
81 103 0.96
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (80 bp):
TCATTTTACCATACAGGGGTATTACGGTTATTTTACCTATAGGGGCATTACAGTCATTTTACCCT
AAAGGGGTATTACGG
Found at i:63309614 original size:45 final size:45
Alignment explanation
Indices: 63309546--63309712 Score: 235
Period size: 45 Copynumber: 3.7 Consensus size: 45
63309536 GTAGGATTCG
* * *
63309546 ATATGTGTTTTCGTGTAATACCACATCTGGGATGATGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATCAAT
*
63309591 ATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATCAAT
* * *
63309636 ATATGTGTTTTCATGTAAGACCATGTCTGGGACGTTGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATCAAT
* * * *
63309681 ATATGTGGTTACGTGTAAGACAATGTCTGGGA
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGA
63309713 CATCGGCATC
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 110 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATCAAT
Found at i:63319400 original size:39 final size:39
Alignment explanation
Indices: 63319297--63319410 Score: 167
Period size: 38 Copynumber: 2.9 Consensus size: 39
63319287 TAATAGTTTG
*
63319297 AGTCTTTAATTATGTCATAATTTGAACGTCATTAATATA
1 AGTCTTTAATTATGTCATAATTTGAACATCATTAATATA
* *
63319336 AGT-TTTAATTATGTCATACTCTGAACATCATTAATATA
1 AGTCTTTAATTATGTCATAATTTGAACATCATTAATATA
* * *
63319374 GGTCTTTAATTATGTCATAGTTTGAACATCTTTAATA
1 AGTCTTTAATTATGTCATAATTTGAACATCATTAATA
63319411 CTTGTTTTCA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 34 0.51
39 33 0.49
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (39 bp):
AGTCTTTAATTATGTCATAATTTGAACATCATTAATATA
Found at i:63325378 original size:21 final size:19
Alignment explanation
Indices: 63325353--63325402 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
63325343 AACGTGCTCC
*
63325353 TCTTTCTTTTTTCCTTTGTTT
1 TCTTTCTTTTTT-C-TTCTTT
*
63325374 TCTTT-TTGTTTCTTCTTT
1 TCTTTCTTTTTTCTTCTTT
63325392 T-TTTCTTTTTT
1 TCTTTCTTTTTT
63325403 GAAAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 3 0.12
18 11 0.44
19 1 0.04
20 5 0.20
21 5 0.20
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (19 bp):
TCTTTCTTTTTTCTTCTTT
Found at i:63326714 original size:40 final size:39
Alignment explanation
Indices: 63326615--63326710 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
63326605 TTAATATGAA
* * *
63326615 TTTAATTATGTCATAATCT-GAACATATTAACTAAGGTT
1 TTTAATTATGTCTTAGTTTAGAACATATTAACTAAGGTT
*
63326653 TTTAATTATGTCTTAGTTTAGAACATATTAAGT-AGGATTT
1 TTTAATTATGTCTTAGTTTAGAACATATTAACTAAGG--TT
*
63326693 TTTAA-TCTGTCTTAGTTT
1 TTTAATTATGTCTTAGTTT
63326711 TAGACATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
38 19 0.38
39 24 0.48
40 7 0.14
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.48
Consensus pattern (39 bp):
TTTAATTATGTCTTAGTTTAGAACATATTAACTAAGGTT
Found at i:63329725 original size:23 final size:23
Alignment explanation
Indices: 63329699--63329743 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
63329689 GTGTAAAAAA
63329699 TTCAAAA-TATAAAAAAGAAAGAG
1 TTCAAAAGTATAAAAAA-AAAGAG
63329722 TTCAAAAGTATAAAAAAAAAGA
1 TTCAAAAGTATAAAAAAAAAGA
63329744 AAGAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.67, C:0.04, G:0.11, T:0.18
Consensus pattern (23 bp):
TTCAAAAGTATAAAAAAAAAGAG
Found at i:63332373 original size:50 final size:52
Alignment explanation
Indices: 63332314--63332412 Score: 175
Period size: 50 Copynumber: 1.9 Consensus size: 52
63332304 TTAAAAAAGT
*
63332314 CATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGG
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGG
63332364 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTA
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTA
63332413 AGTCATCCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 27 0.59
51 12 0.26
52 7 0.15
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTATGG
Found at i:63334146 original size:26 final size:26
Alignment explanation
Indices: 63334117--63334169 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
63334107 ATAATAATGC
*
63334117 AATGTTATGTTTGAATTGTATTTCTT
1 AATGTTATGTTTGAATTATATTTCTT
63334143 AATGTTATGTTTGAATTATATTTCTT
1 AATGTTATGTTTGAATTATATTTCTT
63334169 A
1 A
63334170 CTATTATTGC
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:0.26, C:0.04, G:0.13, T:0.57
Consensus pattern (26 bp):
AATGTTATGTTTGAATTATATTTCTT
Found at i:63334176 original size:26 final size:26
Alignment explanation
Indices: 63334121--63334176 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
63334111 TAATGCAATG
* *
63334121 TTATGTTTGAATTGTATTTCTTAATG
1 TTATGTTTGAATTATATTTCTTAATA
*
63334147 TTATGTTTGAATTATATTTCTTACTA
1 TTATGTTTGAATTATATTTCTTAATA
63334173 TTAT
1 TTAT
63334177 TGCATATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (26 bp):
TTATGTTTGAATTATATTTCTTAATA
Found at i:63334790 original size:49 final size:49
Alignment explanation
Indices: 63334617--63334861 Score: 303
Period size: 49 Copynumber: 4.9 Consensus size: 49
63334607 TCTATTGTGA
* * * * *
63334617 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTAT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-T
* * *
63334668 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-AGGTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA-ATT
63334717 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* **
63334767 GGTCACGTGTGTAGTACTAAGTGCTGGCTACTACGTGTACTGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
63334816 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
63334862 GCTTTGGCTA
Statistics
Matches: 170, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
49 85 0.50
50 46 0.27
51 39 0.23
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:63338003 original size:27 final size:27
Alignment explanation
Indices: 63337965--63338053 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
63337955 CAAAACAGTC
*
63337965 ATTTTACCCTACAGGGGTATTTCGGTA
1 ATTTTACACTACAGGGGTATTTCGGTA
* ** *
63337992 ATTTTACACTACAAGATTATTTCGATA
1 ATTTTACACTACAGGGGTATTTCGGTA
* *
63338019 ATTTTACA-AATC-GAGGGTGTTTCGGTA
1 ATTTTACACTA-CAG-GGGTATTTCGGTA
63338046 ATTTTACA
1 ATTTTACA
63338054 AATTGATGGT
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.02
27 48 0.98
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAGGGGTATTTCGGTA
Found at i:63338054 original size:27 final size:27
Alignment explanation
Indices: 63337979--63338480 Score: 549
Period size: 27 Copynumber: 18.6 Consensus size: 27
63337969 TACCCTACAG
* *
63337979 GGGTATTTCGGTAATTTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
** *
63338006 GATTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
63338033 GGGTGTTTCGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
63338060 TGGTATTTTGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* **
63338087 GGGTATTTCGATAATTTTACAAATTAA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
63338114 AGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
63338141 GGGTGTTTTGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
63338168 TGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * * *
63338195 GGGTGTTTTGGTAATTTCACAAATTGG
1 GGGTATTTCGGTAATTTTACAAATCGA
*
63338222 GGGTATTTCGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * * *
63338249 GGGTGTTTTGGTAATTTCACAAATTGG
1 GGGTATTTCGGTAATTTTACAAATCGA
*
63338276 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
63338303 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
63338330 GGGTGTTTCGGTAATTTTACAAATCAA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * *
63338357 GAGTGTTTCGGTAATTTCACAAATCGG
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
63338384 GGGTATTTCGATAATTTTACAAATCAA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
63338411 GGGTATTTCGATAATTTCAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * *
63338437 GGTTATTTCGATAATTTTATAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
63338464 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
63338481 CTCTTTATTA
Statistics
Matches: 400, Mismatches: 73, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 22 0.05
27 376 0.94
28 2 0.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:63340432 original size:40 final size:40
Alignment explanation
Indices: 63340331--63340441 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
63340321 TTCATAGTTG
* *
63340331 AAGCTATCTCAGTCTCACACACTATGTGCCATATATAGCCA
1 AAGCTATCTC-GACTCACACACTAAGTGCCATATATAGCCA
* * ** *
63340372 AAGCTATTTTGACTCACACACTAAGTGCTTTATATAGCCG
1 AAGCTATCTCGACTCACACACTAAGTGCCATATATAGCCA
*
63340412 AAGCTATCTCGA-TACGCACACTAAGTGCCA
1 AAGCTATCTCGACT-CACACACTAAGTGCCA
63340442 AACATAATCA
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.02
40 48 0.84
41 8 0.14
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (40 bp):
AAGCTATCTCGACTCACACACTAAGTGCCATATATAGCCA
Found at i:63343426 original size:27 final size:27
Alignment explanation
Indices: 63343369--63343498 Score: 75
Period size: 27 Copynumber: 4.9 Consensus size: 27
63343359 CCCCCAGTTA
* ** *
63343369 TAAAATTA-CAAAAGTACCCCCGGTTTA
1 TAAAATTACCAAAA-TACCCTCAATTTG
* * *
63343396 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTACCAAAATACCCTCAATTTG
* *
63343423 TAAAATTATCAAAATACCCTTAATTTG
1 TAAAATTACCAAAATACCCTCAATTTG
* ** * * *
63343450 CAAAATTACTGAAATACCATCGACTTG
1 TAAAATTACCAAAATACCCTCAATTTG
* * *
63343477 TTAAA-TATCAAAGTACCCTCAA
1 TAAAATTACCAAAATACCCTCAA
63343499 ATTACAAAAT
Statistics
Matches: 76, Mismatches: 26, Indels: 3
0.72 0.25 0.03
Matches are distributed among these distances:
26 11 0.14
27 61 0.80
28 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCAATTTG
Found at i:63343495 original size:53 final size:54
Alignment explanation
Indices: 63343397--63343510 Score: 133
Period size: 53 Copynumber: 2.1 Consensus size: 54
63343387 CCCGGTTTAT
* * * *
63343397 AAAATTACCCAAATATCCTCGATTTGTAAAATTATCAAAATACCCTTAATTTGC
1 AAAATTACCCAAATATCCTCGACTTGTAAAATTATCAAAATACCCTCAAATTAC
** * *
63343451 AAAATTACTGAAATA-CCATCGACTTGTTAAA-TATCAAAGTACCCTCAAATTAC
1 AAAATTACCCAAATATCC-TCGACTTGTAAAATTATCAAAATACCCTCAAATTAC
63343504 AAAATTA
1 AAAATTA
63343511 TTGTTTTACC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
53 27 0.53
54 24 0.47
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (54 bp):
AAAATTACCCAAATATCCTCGACTTGTAAAATTATCAAAATACCCTCAAATTAC
Found at i:63343520 original size:27 final size:27
Alignment explanation
Indices: 63343490--63343953 Score: 509
Period size: 27 Copynumber: 17.2 Consensus size: 27
63343480 AATATCAAAG
* * *
63343490 TACCCTCAAATTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
63343517 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
63343544 TACCCTCGATTGATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
63343571 TACTCTCGATTGATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
** * * * *
63343598 TATGCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
** *
63343625 TACCCTTAATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
63343652 TACCCTTGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * *
63343679 TACCCTCAATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
63343706 TACCCTCAATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
63343733 TACTCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
63343760 TACCATCGATTTACAAAATTACTGTTC
1 TACCCTCGATTTACAAAATTACTGTTT
* *
63343787 TACCCTCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * *
63343814 TACCCTCGAATGACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
63343841 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
63343868 TACCCTCAATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * **
63343895 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * **
63343922 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
63343949 TACCC
1 TACCC
63343954 CTAGGGTGTT
Statistics
Matches: 377, Mismatches: 56, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.00
27 374 0.99
28 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:63344295 original size:31 final size:32
Alignment explanation
Indices: 63344257--63344318 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
63344247 CTCGCTGCAA
* *
63344257 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
63344288 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
63344319 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:63344450 original size:6 final size:6
Alignment explanation
Indices: 63344419--63344518 Score: 71
Period size: 6 Copynumber: 16.3 Consensus size: 6
63344409 TTGCATTCAC
* * *
63344419 ATTCTG ATTTTG ATTCT- TTTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
63344468 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
63344517 AT
1 AT
63344519 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
5 4 0.06
6 61 0.85
7 5 0.07
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:63344470 original size:37 final size:37
Alignment explanation
Indices: 63344419--63344509 Score: 128
Period size: 37 Copynumber: 2.5 Consensus size: 37
63344409 TTGCATTCAC
* * *
63344419 ATTCTGATTTTGATTCTTTTACCTGATACTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTAATACTGATTCTG
* *
63344456 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTAATACTGATTCTG
*
63344493 ATTCTCATTTTGATTCT
1 ATTCTGATTTTGATTCT
63344510 AGTTCTGATA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.51
Consensus pattern (37 bp):
ATTCTGATTTTGATTCTGTCACCTAATACTGATTCTG
Found at i:63346551 original size:27 final size:26
Alignment explanation
Indices: 63346521--63346651 Score: 111
Period size: 27 Copynumber: 4.8 Consensus size: 26
63346511 CCCCCAATTC
* * *
63346521 TAAAATTACCAAAGTACCCCCGGTTTA
1 TAAAATTACCAAA-TACCCTCGATTTG
* *
63346548 TAAAATTACCCAAATATCCTCGATTTT
1 TAAAATTA-CCAAATACCCTCGATTTG
63346575 TAAAATTACCGAAATACCCTC-AGTTTG
1 TAAAATTACC-AAATACCCTCGA-TTTG
* * * *
63346602 CAAAATTACTAAAATACCATCGACTTG
1 TAAAATTAC-CAAATACCCTCGATTTG
*
63346629 TAAAATTATCAAAGTACCCTCGA
1 TAAAATTACCAAA-TACCCTCGA
63346652 ATTACAAAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
26 6 0.07
27 72 0.86
28 6 0.07
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (26 bp):
TAAAATTACCAAATACCCTCGATTTG
Found at i:63346660 original size:27 final size:27
Alignment explanation
Indices: 63346602--63346693 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
63346592 CCTCAGTTTG
* * * *
63346602 CAAAATTACTAAAATACCATCGACTTG
1 CAAAATTACTAAAGTACCCTCGAATTA
*
63346629 TAAAATTA-TCAAAGTACCCTCGAATTA
1 CAAAATTACT-AAAGTACCCTCGAATTA
*** *
63346656 CAAAATTACTATTTTACCCTCGATTTA
1 CAAAATTACTAAAGTACCCTCGAATTA
63346683 CAAAATTACTA
1 CAAAATTACTA
63346694 TTTTACCCTC
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (27 bp):
CAAAATTACTAAAGTACCCTCGAATTA
Found at i:63346665 original size:54 final size:54
Alignment explanation
Indices: 63346521--63346666 Score: 154
Period size: 54 Copynumber: 2.7 Consensus size: 54
63346511 CCCCCAATTC
* * * ** * *
63346521 TAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCCAAATATCCTCGATTTT
1 TAAAATTACCAAAGTACCCTCGATTTACAAAATTACTAAAATATCCTCGACTTG
*
63346575 TAAAATTACCGAAA-TACCCTC-AGTTTGCAAAATTACTAAAATA-CCATCGACTTG
1 TAAAATTACC-AAAGTACCCTCGA-TTTACAAAATTACTAAAATATCC-TCGACTTG
* *
63346629 TAAAATTATCAAAGTACCCTCGAATTACAAAATTACTA
1 TAAAATTACCAAAGTACCCTCGATTTACAAAATTACTA
63346667 TTTTACCCTC
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
53 5 0.07
54 67 0.88
55 4 0.05
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
TAAAATTACCAAAGTACCCTCGATTTACAAAATTACTAAAATATCCTCGACTTG
Found at i:63346694 original size:27 final size:27
Alignment explanation
Indices: 63346643--63347106 Score: 579
Period size: 27 Copynumber: 17.2 Consensus size: 27
63346633 ATTATCAAAG
*
63346643 TACCCTCGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
63346670 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
63346697 TACCCTCGAGTGACAGAATTACTCTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
63346724 TACCCTCGATTGATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
63346751 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
63346778 TGCCCTCAATTTAAAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
63346805 CACCCTCAATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
63346832 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
63346859 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
63346886 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
63346913 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
63346940 TACCCTCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-ATTT
* *
63346967 TACCCTCGATTGACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
63346994 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
63347021 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
** * **
63347048 TACCCTTAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
63347075 TACCCTCAATTTATAAAATTGCCATTT
1 TACCCTCGATTTACAAAATTACTATTT
63347102 TACCC
1 TACCC
63347107 CTAGGTGTTA
Statistics
Matches: 383, Mismatches: 52, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 381 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:63347386 original size:27 final size:26
Alignment explanation
Indices: 63347342--63347393 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
63347332 CTCGCTGTAA
*
63347342 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
63347369 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
63347394 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:63347647 original size:6 final size:6
Alignment explanation
Indices: 63347616--63347709 Score: 50
Period size: 6 Copynumber: 15.3 Consensus size: 6
63347606 TTACATTCAC
* * *
63347616 ATTCTG ATTTTG ATCCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
63347665 -TCACCTA ATTCTG ATTCTG ATTTTC ATTTTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
63347710 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
5 3 0.05
6 55 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:63347652 original size:31 final size:31
Alignment explanation
Indices: 63347616--63347688 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
63347606 TTACATTCAC
* *
63347616 ATTCTGATTTTGATCCTGTTACCTGATACTG
1 ATTCTGATTTTGATCCTGTCACCTAATACTG
* * *
63347647 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATCCTGTCACCTAATACTG
63347678 ATTCTGATTTT
1 ATTCTGATTTT
63347689 CATTTTGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATCCTGTCACCTAATACTG
Found at i:63349716 original size:26 final size:26
Alignment explanation
Indices: 63349687--63349810 Score: 83
Period size: 27 Copynumber: 4.7 Consensus size: 26
63349677 TTAGTTTACC
*
63349687 AAATTACTGAAATACCCCTAGTTATA
1 AAATTACCGAAATACCCCTAGTTATA
*
63349713 AAATTACC-AAAGTACCCCCAGTTTATA
1 AAATTACCGAAA-TACCCCTAG-TTATA
* * * * * *
63349740 AAAGTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATA-CCCCTAGTTATA
*
63349767 AAATTACCGAAATA-TCCTCAGTT-TGCA
1 AAATTACCGAAATACCCCT-AGTTAT--A
*
63349794 AAATTACTGAAATACCC
1 AAATTACCGAAATACCC
63349811 TCGACTTGTA
Statistics
Matches: 75, Mismatches: 15, Indels: 14
0.72 0.14 0.13
Matches are distributed among these distances:
25 5 0.07
26 18 0.24
27 44 0.59
28 8 0.11
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATTACCGAAATACCCCTAGTTATA
Found at i:63349768 original size:27 final size:27
Alignment explanation
Indices: 63349738--63349826 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
63349728 CCCCAGTTTA
* *
63349738 TAAAAGTACCCAAATATCCTCGATTTG
1 TAAAATTACCGAAATATCCTCGATTTG
63349765 TAAAATTACCGAAATATCCTC-AGTTTG
1 TAAAATTACCGAAATATCCTCGA-TTTG
* * * *
63349792 CAAAATTACTGAAATACCCTCGACTTG
1 TAAAATTACCGAAATATCCTCGATTTG
63349819 TAAAATTA
1 TAAAATTA
63349827 TTAAAGTACC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATATCCTCGATTTG
Found at i:63349789 original size:54 final size:54
Alignment explanation
Indices: 63349711--63349837 Score: 139
Period size: 54 Copynumber: 2.4 Consensus size: 54
63349701 CCCCTAGTTA
* * *
63349711 TAAAATTACCAAAGTACCCCCAGTTTATAAAAGTACCCAAATATCCTCGATTTG
1 TAAAATTACCAAAGTACCCCCAGTTTACAAAAGTACCCAAATACCCTCGACTTG
* * * * **
63349765 TAAAATTACCGAAA-TATCCTCAGTTTGCAAAATTACTGAAATACCCTCGACTTG
1 TAAAATTACC-AAAGTACCCCCAGTTTACAAAAGTACCCAAATACCCTCGACTTG
**
63349819 TAAAATTATTAAAGTACCC
1 TAAAATTACCAAAGTACCC
63349838 TCGAATTACA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
53 3 0.05
54 53 0.90
55 3 0.05
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (54 bp):
TAAAATTACCAAAGTACCCCCAGTTTACAAAAGTACCCAAATACCCTCGACTTG
Found at i:63349850 original size:27 final size:26
Alignment explanation
Indices: 63349792--63349880 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
63349782 CCTCAGTTTG
* * *
63349792 CAAAATTACTGAAATACCCTCGACTTG
1 CAAAATTA-TTAAATACCCTCGAATTA
*
63349819 TAAAATTATTAAAGTACCCTCGAATTA
1 CAAAATTATTAAA-TACCCTCGAATTA
* ** *
63349846 CAAAATTACTATTTTACCCTCGATTTA
1 CAAAATTATTA-AATACCCTCGAATTA
63349873 CAAAATTA
1 CAAAATTA
63349881 CTGTTTTACC
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.08
27 47 0.92
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (26 bp):
CAAAATTATTAAATACCCTCGAATTA
Found at i:63350292 original size:27 final size:27
Alignment explanation
Indices: 63349833--63350285 Score: 557
Period size: 27 Copynumber: 16.8 Consensus size: 27
63349823 ATTATTAAAG
*
63349833 TACCCTCGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
63349860 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
63349887 TACCCTCGATTGACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * * *
63349914 TACCCTTGATTGATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
63349941 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
63349968 TACCCTCAATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* **
63349995 TACCCTCTATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
63350022 TACCCTCGACTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
63350049 TACCCTCGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
63350076 TACCATCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
63350103 TACCATCAATTTGCAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* **
63350130 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
63350157 TACCCTCGATTGACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
63350184 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
63350211 TACCCTCGATTTAAAAAATTACTA-TT
1 TACCCTCGATTTACAAAATTACTATTT
** * * *
63350237 TATGCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
63350264 TACCCTCAATTTATAAAATTAC
1 TACCCTCGATTTACAAAATTAC
63350286 CGTTTTAGCC
Statistics
Matches: 374, Mismatches: 51, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
26 20 0.05
27 354 0.95
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:63350814 original size:25 final size:25
Alignment explanation
Indices: 63350776--63350832 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
63350766 ATTCTAATTT
* * *
63350776 TGATTCTTTTACCTGATACTGATTC
1 TGATTCTGTCACCTAATACTGATTC
*
63350801 TGATTCTGTCACCTAATTCTGATTC
1 TGATTCTGTCACCTAATACTGATTC
63350826 TGATTCT
1 TGATTCT
63350833 CATTTTGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.47
Consensus pattern (25 bp):
TGATTCTGTCACCTAATACTGATTC
Found at i:63353763 original size:15 final size:14
Alignment explanation
Indices: 63353743--63353789 Score: 67
Period size: 15 Copynumber: 3.2 Consensus size: 14
63353733 AAAGAGAGTT
63353743 TGAAAAAGAAACAAG
1 TGAAAAAGAAA-AAG
*
63353758 TGAAAAAGATGAAAG
1 TGAAAAAGA-AAAAG
63353773 TGAAAAAGAAAAAG
1 TGAAAAAGAAAAAG
63353787 TGA
1 TGA
63353790 GGAATGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 7 0.24
15 21 0.72
16 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.23, T:0.11
Consensus pattern (14 bp):
TGAAAAAGAAAAAG
Found at i:63363098 original size:42 final size:43
Alignment explanation
Indices: 63363047--63363156 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 43
63363037 TATTTGAGAT
**
63363047 TTACATGTAAGACCATGTCTGGGACATCGGCATCG-TATCTG-A
1 TTACATGTAAGACCATGTCTGGGACAGAGGCATCGATAT-TGAA
* * * *
63363089 TTTCGTGTAAAACCCTGTCTGGGACAGAGGCATCGATATTGAA
1 TTACATGTAAGACCATGTCTGGGACAGAGGCATCGATATTGAA
* *
63363132 TTACATGTAAGACCATATTTGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
63363157 GTTGGCATTG
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
42 31 0.57
43 23 0.43
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGAGGCATCGATATTGAA
Found at i:63366734 original size:28 final size:27
Alignment explanation
Indices: 63366702--63366768 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
63366692 GCTAGAACAT
63366702 ATTAAAAATATGTAATAGACTAAGACAA
1 ATTAAAAATATGTAATA-ACTAAGACAA
* * * * *
63366730 ATTAATAACATGTACTAACTATGACAT
1 ATTAAAAATATGTAATAACTAAGACAA
63366757 ATTAAAAATATG
1 ATTAAAAATATG
63366769 CATAAAAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 18 0.56
28 14 0.44
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (27 bp):
ATTAAAAATATGTAATAACTAAGACAA
Found at i:63366760 original size:27 final size:28
Alignment explanation
Indices: 63366698--63366764 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
63366688 TGAAGCTAGA
*
63366698 ACATATTAAAAATATGTAATAGACTAAG
1 ACATATTAAAAACATGTAATAGACTAAG
* * * *
63366726 ACAAATTAATAACATGTACTA-ACTATG
1 ACATATTAAAAACATGTAATAGACTAAG
63366753 ACATATTAAAAA
1 ACATATTAAAAA
63366765 TATGCATAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 15 0.47
28 17 0.53
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.28
Consensus pattern (28 bp):
ACATATTAAAAACATGTAATAGACTAAG
Found at i:63369702 original size:37 final size:37
Alignment explanation
Indices: 63369644--63369851 Score: 276
Period size: 37 Copynumber: 5.9 Consensus size: 37
63369634 GCTCAGACGA
* * * *
63369644 AATCTCCACACGAAGTTATCGGGTCTTACCCGAACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
63369681 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
63369718 AATCTCCACACGTAGTCATCGGG---T--------AT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
63369744 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
63369781 AATCACCACACGTAGTCATTGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
63369818 AATCACCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
63369852 ATATATTTCC
Statistics
Matches: 153, Mismatches: 7, Indels: 22
0.84 0.04 0.12
Matches are distributed among these distances:
26 25 0.16
29 1 0.01
34 1 0.01
37 126 0.82
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:63369752 original size:26 final size:26
Alignment explanation
Indices: 63369716--63369767 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
63369706 TTACCCGGAC
63369716 ATAATCTCCACACGTAGTCATCGGGT
1 ATAATCTCCACACGTAGTCATCGGGT
63369742 ATAATCTCCACACGTAGTCATCGGGT
1 ATAATCTCCACACGTAGTCATCGGGT
63369768 CTTACCCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (26 bp):
ATAATCTCCACACGTAGTCATCGGGT
Found at i:63369780 original size:63 final size:63
Alignment explanation
Indices: 63369681--63369804 Score: 230
Period size: 63 Copynumber: 2.0 Consensus size: 63
63369671 ACCCGAACAA
*
63369681 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCACCACACGTAGTCATCGGGTAT
*
63369744 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCACCACACGTAGTCATTGGGT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCACCACACGTAGTCATCGGGT
63369805 CTTACCCGGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (63 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCACCACACGTAGTCATCGGGTAT
Found at i:63369817 original size:100 final size:100
Alignment explanation
Indices: 63369644--63369841 Score: 333
Period size: 100 Copynumber: 2.0 Consensus size: 100
63369634 GCTCAGACGA
* *
63369644 AATCTCCACACGAAGTTATCGGGTCTTACCCGAACAAAATCTCCACACGTAGTCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCACCACACGTAGTCATCGGGTCTTA
*
63369709 CCCGGACATAATCTCCACACGTAGTCATCGGGTAT
66 CCCGGACATAATCACCACACGTAGTCATCGGGTAT
* * * *
63369744 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCACCACACGTAGTCATTGGGTCTTA
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCACCACACGTAGTCATCGGGTCTTA
63369809 CCCGGACATAATCACCACACGTAGTCATCGGGT
66 CCCGGACATAATCACCACACGTAGTCATCGGGT
63369842 CTTACCCGGA
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (100 bp):
AATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCACCACACGTAGTCATCGGGTCTTA
CCCGGACATAATCACCACACGTAGTCATCGGGTAT
Found at i:63370052 original size:48 final size:48
Alignment explanation
Indices: 63369998--63370132 Score: 252
Period size: 48 Copynumber: 2.8 Consensus size: 48
63369988 GCACATCGCC
*
63369998 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
63370046 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
63370094 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
63370133 TGCATGTTCA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:63370181 original size:47 final size:47
Alignment explanation
Indices: 63370102--63370295 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
63370092 CGTACATATT
* * *
63370102 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
63370149 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
63370196 TCACATTGGCTATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
63370243 TCACATTGGCCATTCAGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
63370290 TCACAT
1 TCACAT
63370296 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:63370296 original size:25 final size:25
Alignment explanation
Indices: 63370217--63370296 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
63370207 ATTCGGCCTT
**
63370217 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* *
63370242 ATCACAT-T-GGC-CATTCAGCCTT-
1 ATCACATATATGCACATTCA-CATTC
* *
63370264 ATCTCATATATACACATTCACATTC
1 ATCACATATATGCACATTCACATTC
63370289 ATCACATA
1 ATCACATA
63370297 AAATCCTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 10 0.24
23 6 0.15
24 5 0.12
25 20 0.49
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:63375248 original size:25 final size:25
Alignment explanation
Indices: 63375197--63375279 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 25
63375187 AGCATAGCTG
*
63375197 CTTTATCATATAACTGGAGGCCT-AGCC
1 CTTT-TCA-ATAACTGG-GGCATAAGCC
63375224 TCTTTT-AATAACTGGGGCATAAGCC
1 -CTTTTCAATAACTGGGGCATAAGCC
*
63375249 CTTTTCAGTAAACTGGGGCATAAGCC
1 CTTTTCAAT-AACTGGGGCATAAGCC
63375275 CTTTT
1 CTTTT
63375280 GCACTTCCTC
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
24 9 0.18
25 14 0.28
26 22 0.44
27 1 0.02
28 4 0.08
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (25 bp):
CTTTTCAATAACTGGGGCATAAGCC
Found at i:63375351 original size:9 final size:9
Alignment explanation
Indices: 63375337--63375393 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
63375327 ACATCATGTG
63375337 CATATCATA
1 CATATCATA
*
63375346 CATATCATGTG
1 CATATCA--TA
*
63375357 CATATCGTA
1 CATATCATA
*
63375366 CATATCATGTG
1 CATATCA--TA
63375377 CATATCATA
1 CATATCATA
63375386 CATATCAT
1 CATATCAT
63375394 GTGCATATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:63375354 original size:20 final size:20
Alignment explanation
Indices: 63375329--63375405 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
63375319 TTATGAATAC
63375329 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
63375349 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
63375369 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
63375389 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
63375406 TCAATATTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:63375360 original size:11 final size:11
Alignment explanation
Indices: 63375329--63375404 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
63375319 TTATGAATAC
63375329 ATCATGTGCAT
1 ATCATGTGCAT
*
63375340 ATCA--TACAT
1 ATCATGTGCAT
63375349 ATCATGTGCAT
1 ATCATGTGCAT
*
63375360 ATC--GTACAT
1 ATCATGTGCAT
63375369 ATCATGTGCAT
1 ATCATGTGCAT
*
63375380 ATCA--TACAT
1 ATCATGTGCAT
63375389 ATCATGTGCAT
1 ATCATGTGCAT
63375400 ATCAT
1 ATCAT
63375405 ATCAATATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:63385056 original size:50 final size:49
Alignment explanation
Indices: 63384934--63385170 Score: 252
Period size: 50 Copynumber: 4.8 Consensus size: 49
63384924 CCGAAGCTAC
* *
63384934 CTGATACGCATAGTAGCCTGCACTTAGTACTACACA--TGCGATCAACAAT
1 CTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGC-ATCAAC-AT
* *
63384983 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACATCATCAT
1 CTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG-CATCAACAT
*
63385033 CTGATACACGTAGTAGCCTGCACTTAGTACTACACACATG-ATCGAAGTCAT
1 CTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGCATC-AA--CAT
* * *
63385084 -TGAGTACGCATAGTAGCCTGCACTTAGTACTACACA--TGCGACTTAACAGT
1 CTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGC-A-TCAACA-T
* *
63385134 ATGATACACGTAGTAGCCTACACTTAGTACTACACAC
1 CTGATACACGTAGTAGCCTGCACTTAGTACTACACAC
63385171 ATGTATTCAT
Statistics
Matches: 162, Mismatches: 13, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
48 3 0.02
49 38 0.23
50 73 0.45
51 46 0.28
52 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (49 bp):
CTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGCATCAACAT
Found at i:63385119 original size:101 final size:99
Alignment explanation
Indices: 63384934--63385173 Score: 297
Period size: 101 Copynumber: 2.4 Consensus size: 99
63384924 CCGAAGCTAC
* * *** *
63384934 CTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAACAATCTGGTACACGTAGTAG
1 CTGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCAACAATCTGGTACACATAGTAG
* *
63384999 CCTGCACTTAGTACTACACACGTGACATCATCA-T
66 CCTGCACTTAGTACTACACACGCGAC-TCAACAGT
*
63385033 CTGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTC-AT-TGAGTACGCATA
1 CTGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATC-AA--CAATCTG-GTACACATA
* *
63385096 GTAGCCTGCACTTAGTACTACACATGCGACTTAACAGT
62 GTAGCCTGCACTTAGTACTACACACGCGACTCAACAGT
* *
63385134 ATGATACACGTAGTAGCCTACACTTAGTACTACACACATG
1 CTGATACACGTAGTAGCCTGCACTTAGTACTACACACATG
63385174 TATTCATAAT
Statistics
Matches: 123, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
99 38 0.31
100 8 0.07
101 76 0.62
102 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (99 bp):
CTGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCAACAATCTGGTACACATAGTAG
CCTGCACTTAGTACTACACACGCGACTCAACAGT
Found at i:63386872 original size:19 final size:18
Alignment explanation
Indices: 63386833--63386875 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
63386823 CTTTTCACTC
63386833 TCTTTTTTCATTTTTCCTT
1 TCTTTTTTCATTTTT-CTT
63386852 TCTTTTTCTCTATTTTT-TT
1 TCTTTTT-TC-ATTTTTCTT
63386871 TCTTT
1 TCTTT
63386876 CGCACTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 14 0.64
20 2 0.09
21 6 0.27
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (18 bp):
TCTTTTTTCATTTTTCTT
Found at i:63387967 original size:85 final size:84
Alignment explanation
Indices: 63387821--63387998 Score: 322
Period size: 85 Copynumber: 2.1 Consensus size: 84
63387811 GGCCAGCCAT
63387821 GAGCATGGGTGGACAAGATGTTATGGCTAAAACATGTTCTAAACATGTTGGGGTAGTGCATTATG
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAACATGTTCTAAACATGTTGGGGTAGTGCATTATG
63387886 TAAGGATTAATAAAATAAA
66 TAAGGATTAATAAAATAAA
63387905 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATG-TCATAAACATGTTGGGGTAGTGCATTA
1 GAGCATGGGTGGACAAGATGTTATGGCT-AAAACATGTTC-TAAACATGTTGGGGTAGTGCATTA
63387969 TGTAAGGATTAATAAAATAAA
64 TGTAAGGATTAATAAAATAAA
*
63387990 GGGCATGGG
1 GAGCATGGG
63387999 CAATAAAATA
Statistics
Matches: 91, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
84 30 0.33
85 61 0.67
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.27
Consensus pattern (84 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAACATGTTCTAAACATGTTGGGGTAGTGCATTATG
TAAGGATTAATAAAATAAA
Found at i:63390233 original size:47 final size:47
Alignment explanation
Indices: 63390182--63390668 Score: 641
Period size: 47 Copynumber: 10.1 Consensus size: 47
63390172 TTAGGATTTT
* *
63390182 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
63390229 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
63390280 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
63390327 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
63390374 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
63390425 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
63390472 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
63390525 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
63390572 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
63390619 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
63390666 ATG
1 ATG
63390669 CGAAACGTGT
Statistics
Matches: 392, Mismatches: 34, Indels: 28
0.86 0.07 0.06
Matches are distributed among these distances:
47 259 0.66
48 1 0.00
49 4 0.01
51 85 0.22
52 1 0.00
53 42 0.11
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:63390289 original size:98 final size:94
Alignment explanation
Indices: 63390182--63390668 Score: 650
Period size: 98 Copynumber: 5.0 Consensus size: 94
63390172 TTAGGATTTT
* *
63390182 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
***
63390247 CGTATATATATGTGTGATAAGGCCGAATGGCCA
64 C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
* * * *
63390280 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
63390345 TGCGTATGTGTGATAAGGCCGAATGGCCA
66 TGCGTATGTGTGATAAGGCCGAATGGCCA
**
63390374 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
63390439 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
62 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
** *
63390472 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
*
63390537 TGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
60 TGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
63390572 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
** * * *
63390637 TGAATATATGTGGTAAGGCCGAATGGCTA
66 TGCGTATGTGTGATAAGGCCGAATGGCCA
63390666 ATG
1 ATG
63390669 CGAAACGTGT
Statistics
Matches: 357, Mismatches: 25, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
94 111 0.31
96 2 0.01
97 2 0.01
98 149 0.42
99 1 0.00
100 92 0.26
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:63390335 original size:145 final size:145
Alignment explanation
Indices: 63390182--63390668 Score: 712
Period size: 145 Copynumber: 3.3 Consensus size: 145
63390172 TTAGGATTTT
* *
63390182 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
63390247 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGAT
66 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
63390312 AAGGCCGAATGGCCA
131 AAGGCCGAATGGCCA
* * *
63390327 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
63390392 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
66 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
63390457 AAGGCCGAATGGCCA
131 AAGGCCGAATGGCCA
** *
63390472 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
*** * * *
63390537 TGAA--C--ATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCATATA
60 TGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATG
*
63390598 TGAGATAAGGCCGAATGGCCA
125 TGTGATAAGGCCGAATGGCCA
* * * *
63390619 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATG
63390669 CGAAACGTGT
Statistics
Matches: 315, Mismatches: 21, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
141 27 0.09
145 157 0.50
146 2 0.01
147 86 0.27
149 1 0.00
151 42 0.13
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (145 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
AAGGCCGAATGGCCA
Found at i:63390429 original size:24 final size:24
Alignment explanation
Indices: 63390401--63390476 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
63390391 CCGTATATAT
63390401 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
63390425 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
63390448 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
63390472 ATGTG
1 ATGTG
63390477 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:63390731 original size:46 final size:46
Alignment explanation
Indices: 63390642--63390732 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
63390632 GAACATGAAT
* * * *
63390642 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
63390688 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
63390733 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:63390745 original size:245 final size:244
Alignment explanation
Indices: 63390193--63390717 Score: 755
Period size: 245 Copynumber: 2.2 Consensus size: 244
63390183 TGTGATGGAT
* * *
63390193 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCG--TATATAT
1 GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACCTGTATATATAT
* *
63390256 ATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAA
66 ATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAA
* * * * *
63390321 TGGCCACTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
131 TGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATG
* * *
63390386 TGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
196 TGAACACGTATATATATGTGTGATAAGGCCGAATGGCCAATGCGA-GAAC
* *
63390436 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATAT
1 GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACCTGTATATATAT
*
63390501 ATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAA
66 ATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAA
63390566 TGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATG
131 TGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATG
* *
63390631 TGAACATG-A-ATATATGTG-G-TAAGGCCGAATGGCTAATGCGA-AAC
196 TGAACACGTATATATATGTGTGATAAGGCCGAATGGCCAATGCGAGAAC
* *
63390675 GTGTATGAGATG-GATATGTG-G-TAAAGCCAAATGGCTAATGTGA
1 GTG-A--ACATGCG-TATGTGTGATAAAGCCAAATGGCCAATGTGA
63390718 GATATGTACG
Statistics
Matches: 258, Mismatches: 18, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
239 5 0.02
240 20 0.08
241 22 0.09
242 11 0.04
243 64 0.25
244 1 0.00
245 135 0.52
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (244 bp):
GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACCTGTATATATAT
ATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAA
TGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATG
TGAACACGTATATATATGTGTGATAAGGCCGAATGGCCAATGCGAGAAC
Found at i:63390926 original size:37 final size:37
Alignment explanation
Indices: 63390876--63390966 Score: 173
Period size: 37 Copynumber: 2.5 Consensus size: 37
63390866 GGAAATATAT
63390876 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
63390913 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
63390950 TCCGGGTAAGACCCGAT
1 TCCGGGTAAGACCCGAT
63390967 AACTTCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:63395830 original size:27 final size:27
Alignment explanation
Indices: 63395799--63395976 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
63395789 TAAATTGTAC
63395799 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
63395826 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
63395852 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
63395880 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
63395908 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
63395935 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
63395962 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
63395977 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:63395913 original size:82 final size:81
Alignment explanation
Indices: 63395800--63395955 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
63395790 AAATTGTACA
*
63395800 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
63395864 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
63395881 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
63395946 TGCGAGTTGA
65 TGCGAATTGA
63395956 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:63395967 original size:82 final size:81
Alignment explanation
Indices: 63395796--63395976 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
63395786 GATTAAATTG
*
63395796 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
63395861 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
63395877 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
63395941 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
63395959 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
63395977 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:63399116 original size:80 final size:80
Alignment explanation
Indices: 63398964--63399156 Score: 221
Period size: 80 Copynumber: 2.4 Consensus size: 80
63398954 CGGTTTTAGT
* * *
63398964 AACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTT
*
63399029 AACCCGGATTTA-AC
66 AACCCGGATATATAC
** *
63399043 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATC
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-C
** *
63399107 TTAGTCCGGATATATTC
64 TTAACCCGGATATATAC
* * *
63399124 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
63399157 CAGCATTCAA
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
79 11 0.11
80 80 0.82
81 6 0.06
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTT
AACCCGGATATATAC
Found at i:63399117 original size:40 final size:40
Alignment explanation
Indices: 63398934--63399103 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
63398924 TCCTCGTTCA
* * * ** *
63398934 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
63398973 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
63399013 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
63399053 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
63399093 AAGGCCTTCGG
1 AATGCCTTCGG
63399104 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 33 0.28
40 86 0.72
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:63399156 original size:120 final size:119
Alignment explanation
Indices: 63398934--63399156 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
63398924 TCCTCGTTCA
* * * *
63398934 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATA
* *
63398999 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * **
63399053 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CTTAACCCGGA
* *
63399117 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
63399157 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:63399165 original size:41 final size:41
Alignment explanation
Indices: 63399088--63399165 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
63399078 TTAGTATCTC
* * *
63399088 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
63399129 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
63399166 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:63402635 original size:21 final size:22
Alignment explanation
Indices: 63402611--63402668 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
63402601 TGGACTGAAT
63402611 ATAAAAATTTAAACTAAT-AAA
1 ATAAAAATTTAAACTAATAAAA
*
63402632 ATAAATAA-ATAAA-TAATAAAA
1 ATAAA-AATTTAAACTAATAAAA
*
63402653 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
63402669 TGGGCCACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
20 5 0.17
21 19 0.66
22 4 0.14
23 1 0.03
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (22 bp):
ATAAAAATTTAAACTAATAAAA
Found at i:63404051 original size:23 final size:22
Alignment explanation
Indices: 63404000--63404051 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
63403990 CCTCGTCTTT
*
63404000 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
63404022 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
63404045 TTCTTTT
1 TTCTTTT
63404052 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Done.