Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 172 of 199
Found at i:55521075 original size:19 final size:19
Alignment explanation
Indices: 55521034--55521139 Score: 71
Period size: 19 Copynumber: 5.6 Consensus size: 19
55521024 TTCTTTTACG
* *
55521034 ATTTTTATAAAAAAATTCT-
1 ATTTTT-TAATAAAATTTTA
55521053 ATTTTTTAATAAAATTTTA
1 ATTTTTTAATAAAATTTTA
* *
55521072 ATTTTTTATTAAAA-TCTA
1 ATTTTTTAATAAAATTTTA
55521090 ATATTTTT--TAAAA-TTTA
1 AT-TTTTTAATAAAATTTTA
*
55521107 ATATTTTT-ATAATATTTTTA
1 AT-TTTTTAATAA-AATTTTA
*
55521127 TAATTTTTAATAA
1 -ATTTTTTAATAA
55521140 GAACTTGAGC
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
17 16 0.22
18 18 0.25
19 25 0.34
20 9 0.12
21 5 0.07
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTTTAATAAAATTTTA
Found at i:55521076 original size:18 final size:18
Alignment explanation
Indices: 55521045--55521139 Score: 52
Period size: 18 Copynumber: 5.1 Consensus size: 18
55521035 TTTTTATAAA
* *
55521045 AAAATTCTATTTTTTAAT
1 AAAATTTTAATTTTTAAT
*
55521063 AAAATTTTAATTTTTTATT
1 AAAATTTTAA-TTTTTAAT
* *
55521082 AAAA-TCTAATATTTT-TT
1 AAAATTTTAAT-TTTTAAT
*
55521099 AAAA-TTTAATATTTTTAT
1 AAAATTTTAAT-TTTTAAT
*
55521117 AATATTTTTATAATTTTTAAT
1 AA-A-ATTT-TAATTTTTAAT
55521138 AA
1 AA
55521140 GAACTTGAGC
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
17 17 0.27
18 19 0.31
19 12 0.19
21 10 0.16
22 4 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
AAAATTTTAATTTTTAAT
Found at i:55521102 original size:17 final size:17
Alignment explanation
Indices: 55521070--55521114 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
55521060 AATAAAATTT
*
55521070 TAATTTTTTATTAAAATC
1 TAATATTTT-TTAAAATC
*
55521088 TAATATTTTTTAAAATT
1 TAATATTTTTTAAAATC
55521105 TAATATTTTT
1 TAATATTTTT
55521115 ATAATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATATTTTTTAAAATC
Found at i:55521132 original size:9 final size:11
Alignment explanation
Indices: 55521105--55521139 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
55521095 TTTTAAAATT
55521105 TAATATTTTTA
1 TAATATTTTTA
55521116 TAATATTTTTA
1 TAATATTTTTA
*
55521127 TAAT-TTTTAA
1 TAATATTTTTA
55521137 TAA
1 TAA
55521140 GAACTTGAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TAATATTTTTA
Found at i:55524422 original size:5 final size:5
Alignment explanation
Indices: 55524420--55524469 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
55524410 TTAAAATATA
*
55524420 ATAAT ATAAT ATAAT -TAAT ATAATTT ACAAT ATAAT ATAAT A-AA- ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAA--T ATAAT ATAAT ATAAT ATAAT ATAAT
55524469 A
1 A
55524470 ACATACTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
3 1 0.03
4 8 0.21
5 25 0.66
7 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:55531912 original size:154 final size:152
Alignment explanation
Indices: 55531555--55531973 Score: 587
Period size: 153 Copynumber: 2.8 Consensus size: 152
55531545 AATTTTTTAT
* *
55531555 TTTATTTTAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAA
1 TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
**
55531620 TAAAATTAGAAAATAGTATATTTTTT-AAAGTAATAAAATTCGAGGAAAAAATACGAACAAAAGG
66 TAAAATTAGAAAATAGTATATTTTTTGAAAGTAATAAAA-TCGAAAAAAAAATACGAACAAAAGG
* * *
55531684 CCGAAATAAGGTTTTTTTTAAAA
130 CCAAAATAAGGGTTTTCTTAAAA
* * *
55531707 TTTATTTAAAAAA-ATAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* *
55531771 T-AAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATCAGAAAAAAAAATACGAACAAC
66 TAAAATTA-GAAAATAGTATA-TTTT-TTGAAAGTAATAAAATC-GAAAAAAAAATACGAACAAA
* * *
55531834 TGGCCAAAATTAGGGTTTTCTTCAAA
127 AGGCCAAAATAAGGGTTTTCTTAAAA
* *
55531860 TTTATTTAAAAAACACACTAAATGAATACATTTCAAATATAATGTATTAAAATAATGTAAAATAA
1 TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
*
55531925 TAAAATTAGAAAATAGTATA-TTTTTGAAAGTAATAAAATTTGAAAAAAA
66 TAAAATTAGAAAATAGTATATTTTTTGAAAGTAATAAAA-TCGAAAAAAA
55531974 TACGAATAAA
Statistics
Matches: 236, Mismatches: 22, Indels: 18
0.86 0.08 0.07
Matches are distributed among these distances:
149 2 0.01
150 14 0.06
151 52 0.22
152 39 0.17
153 66 0.28
154 47 0.20
155 14 0.06
156 2 0.01
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (152 bp):
TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
TAAAATTAGAAAATAGTATATTTTTTGAAAGTAATAAAATCGAAAAAAAAATACGAACAAAAGGC
CAAAATAAGGGTTTTCTTAAAA
Found at i:55533574 original size:147 final size:147
Alignment explanation
Indices: 55533318--55533614 Score: 531
Period size: 147 Copynumber: 2.0 Consensus size: 147
55533308 TCAGAGCAAA
55533318 TACTTTCTTTTATTCATCATGTTGATTATGTATGTGCTATGTGATGTGTGATGTACTGGATACTT
1 TACTTTCTTTTATTCATCATGTTGATTATGTATGTGCTATGTGATGTGTGATGTACTGGATACTT
*
55533383 CACTGACATTTTCTTTAATATGTTTTACATAATGTTTTCAGTTTCTAAGTAACTGTCCATTTTTC
66 CACTGACATTTTCTTTAATATGCTTTACATAATGTTTTCAGTTTCTAAGTAACTGTCCATTTTTC
55533448 TTCTTTCTTAGATATGG
131 TTCTTTCTTAGATATGG
* *
55533465 TACTTTCTTTTATTCATCATGTTGATTATTTATGTGCTATGTGATGTGTGATGTACTGGCTACTT
1 TACTTTCTTTTATTCATCATGTTGATTATGTATGTGCTATGTGATGTGTGATGTACTGGATACTT
* * *
55533530 CACTGACATTTTCTTTAATTTGCTTTACATAATGTTTTCTGTTTCTAAGTAACTGTCCGTTTTTC
66 CACTGACATTTTCTTTAATATGCTTTACATAATGTTTTCAGTTTCTAAGTAACTGTCCATTTTTC
*
55533595 TTCTTTCTTGGATATGG
131 TTCTTTCTTAGATATGG
55533612 TAC
1 TAC
55533615 ATGCAGTTAG
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
147 143 1.00
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.50
Consensus pattern (147 bp):
TACTTTCTTTTATTCATCATGTTGATTATGTATGTGCTATGTGATGTGTGATGTACTGGATACTT
CACTGACATTTTCTTTAATATGCTTTACATAATGTTTTCAGTTTCTAAGTAACTGTCCATTTTTC
TTCTTTCTTAGATATGG
Found at i:55543231 original size:25 final size:25
Alignment explanation
Indices: 55543186--55543233 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
55543176 GTTTAAGTGC
*
55543186 AGAATTCTCTTTGAGTTTTTCTTCA
1 AGAATTCTCTTTGAGGTTTTCTTCA
55543211 AGAATTCTCTCTTG-GGTTTTCTT
1 AGAATTCTCT-TTGAGGTTTTCTT
55543234 TAGAAGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.52
Consensus pattern (25 bp):
AGAATTCTCTTTGAGGTTTTCTTCA
Found at i:55547915 original size:28 final size:28
Alignment explanation
Indices: 55547883--55547940 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
55547873 TTCCAGACAC
55547883 TACATTCTTTCTAACTTCTGGTACATAA
1 TACATTCTTTCTAACTTCTGGTACATAA
55547911 TACATTCTTTCTAACTTCTGGTACATAA
1 TACATTCTTTCTAACTTCTGGTACATAA
55547939 TA
1 TA
55547941 TATATCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (28 bp):
TACATTCTTTCTAACTTCTGGTACATAA
Found at i:55548656 original size:9 final size:9
Alignment explanation
Indices: 55548635--55548728 Score: 109
Period size: 9 Copynumber: 10.4 Consensus size: 9
55548625 TTTGGTTAAA
*
55548635 AATTAGCCG
1 AATTAACCG
*
55548644 AATTAACCA
1 AATTAACCG
55548653 AATTAACCG
1 AATTAACCG
*
55548662 AATTACCCG
1 AATTAACCG
55548671 AATT-ACTCG
1 AATTAAC-CG
*
55548680 AATTAACCA
1 AATTAACCG
*
55548689 AATTACCCG
1 AATTAACCG
*
55548698 AATTACCCG
1 AATTAACCG
55548707 AATTAACCG
1 AATTAACCG
*
55548716 AATTAACCT
1 AATTAACCG
55548725 AATT
1 AATT
55548729 GAATCATACA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
8 1 0.01
9 70 0.96
10 2 0.03
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:55548671 original size:27 final size:27
Alignment explanation
Indices: 55548635--55548720 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
55548625 TTTGGTTAAA
* *
55548635 AATTAGCCGAATTAACCAAATTAACCG
1 AATTACCCGAATTAACCGAATTAACCG
*
55548662 AATTACCCGAATT-ACTCGAATTAACCA
1 AATTACCCGAATTAAC-CGAATTAACCG
*
55548689 AATTACCCGAATTACCCGAATTAACCG
1 AATTACCCGAATTAACCGAATTAACCG
55548716 AATTA
1 AATTA
55548721 ACCTAATTGA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 2 0.04
27 49 0.94
28 1 0.02
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (27 bp):
AATTACCCGAATTAACCGAATTAACCG
Found at i:55553513 original size:13 final size:13
Alignment explanation
Indices: 55553495--55553524 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
55553485 TCCAACAACT
55553495 ATGAATTTATTTC
1 ATGAATTTATTTC
*
55553508 ATGAATTTATTTG
1 ATGAATTTATTTC
55553521 ATGA
1 ATGA
55553525 TGATCCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:55553722 original size:50 final size:50
Alignment explanation
Indices: 55553617--55553859 Score: 337
Period size: 50 Copynumber: 4.9 Consensus size: 50
55553607 ACATTGGGTA
*
55553617 GAGAGGTCCCATGTAAGACCATGTTTGGGA-ATGGCATTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
55553666 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
*
55553716 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** * ** * *
55553766 GAGAGGTCCCCCGTAAGACCATGTGTGGGACATTACATCGGTACCG-GCAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG-AT
** * *
55553816 GAGAACATCCCATGTAAGACTATGTCTGGGACATGGCTTTGGCA
1 GAG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
55553860 TGTTATTATC
Statistics
Matches: 170, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 30 0.18
50 111 0.65
51 29 0.17
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:55560082 original size:50 final size:50
Alignment explanation
Indices: 55559967--55560107 Score: 192
Period size: 50 Copynumber: 2.8 Consensus size: 50
55559957 GATAATAACA
* * ** *
55559967 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
55560018 TGCCTATACCATGTCCCACACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
*
55560068 TGCCAATGCCATGTCCCAAACATGGTCTTACATGAGACCT
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCT
55560108 TTCTACCCAA
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 46 0.58
51 33 0.42
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:55565342 original size:3 final size:3
Alignment explanation
Indices: 55565334--55565374 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
55565324 ATTAAGAAAA
*
55565334 AAG AAG AAG AAT AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
55565375 TGGTTCACCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:55566682 original size:22 final size:23
Alignment explanation
Indices: 55566641--55566684 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
55566631 TATTAATTTT
**
55566641 AAAAATATTAAATTTATTTGTAA
1 AAAAATATTAAAAATATTTGTAA
55566664 AAAAATATTAAAAAT-TTTGTA
1 AAAAATATTAAAAATATTTGTA
55566685 CATTTTCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (23 bp):
AAAAATATTAAAAATATTTGTAA
Found at i:55569988 original size:19 final size:18
Alignment explanation
Indices: 55569964--55569999 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
55569954 ATACACATAT
55569964 TTTTATAATTTATAATTTC
1 TTTTATAATTTA-AATTTC
*
55569983 TTTTATATTTTAAATTT
1 TTTTATAATTTAAATTT
55570000 TTTATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATAATTTAAATTTC
Found at i:55569998 original size:18 final size:18
Alignment explanation
Indices: 55569963--55570011 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
55569953 GATACACATA
*
55569963 TTTTTATAATTTATAATT
1 TTTTTATATTTTATAATT
55569981 TCTTTTATATTTTA-AATT
1 T-TTTTATATTTTATAATT
55569999 TTTTATATATTTT
1 TTTT-TATATTTT
55570012 CTTTTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 3 0.11
18 14 0.50
19 11 0.39
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTATATTTTATAATT
Found at i:55570015 original size:30 final size:32
Alignment explanation
Indices: 55569974--55570037 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
55569964 TTTTATAATT
55569974 TATAATTTCTTTT-ATATTTTAAAT-T-TTTTA
1 TATAATTTCTTTTAAT-TTTTAAATATCTTTTA
*
55570004 TATATTTTCTTTTAATTTTTAAATATCTTTTA
1 TATAATTTCTTTTAATTTTTAAATATCTTTTA
55570036 TA
1 TA
55570038 AAAAATAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 20 0.67
31 3 0.10
32 7 0.23
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (32 bp):
TATAATTTCTTTTAATTTTTAAATATCTTTTA
Found at i:55571468 original size:16 final size:16
Alignment explanation
Indices: 55571419--55571478 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
55571409 GTAATATATA
* *
55571419 TGAACCCTGATATATG
1 TGAACCCTTATATGTG
*
55571435 TGAA-CCTTGT-TGCATG
1 TGAACCCTTATATG--TG
55571451 TGAACCCTTATATGTG
1 TGAACCCTTATATGTG
55571467 TGAACCCTTATA
1 TGAACCCTTATA
55571479 AACTGTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 1 0.03
15 4 0.11
16 24 0.67
17 5 0.14
18 2 0.06
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (16 bp):
TGAACCCTTATATGTG
Found at i:55571601 original size:24 final size:23
Alignment explanation
Indices: 55571546--55571611 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 23
55571536 TTAGTATACT
*
55571546 TATGCGAACCCTATATGTTATTA
1 TATGCGAACCCTAAATGTTATTA
*
55571569 CATGCGAACCCTAAATTGTTATTA
1 TATGCGAACCCTAAA-TGTTATTA
* * *
55571593 TATGAGAACGCTACATGTT
1 TATGCGAACCCTAAATGTT
55571612 TGCCTTGCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
23 17 0.47
24 19 0.53
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (23 bp):
TATGCGAACCCTAAATGTTATTA
Found at i:55574681 original size:125 final size:123
Alignment explanation
Indices: 55574480--55574830 Score: 524
Period size: 125 Copynumber: 2.8 Consensus size: 123
55574470 TAATTTCGAG
* * * * * *
55574480 TTGACATTTCTGATCAAATAGTATAAAATCGCTTCTAGCAAGATGTTATTTTAGAAGAATTTGTG
1 TTGACTTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTA
* *
55574545 AAATCGCGCCCTCGTGGACGTGTTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTTT
66 AAATCGCGCCCTTGTGGACGTGCTTTTGCTACAGTAGGTCATGGAAG-AAT-ATTTTTTT
55574605 TTGACTTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTA
1 TTGACTTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTA
* * *
55574670 AAATCGTGCCCTTGTGGACGTGCTTTTGCTACAGTCGGTCATGGAAGAATTTTTTTTT
66 AAATCGCGCCCTTGTGGACGTGCTTTTGCTACAGTAGGTCATGGAAGAATATTTTTTT
* * *
55574728 TTGA-TGTTTCTAAGCTAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACT-TTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGT
*
55574792 GAAAATCGCGCCCTTGTGGACGCGCTTTTGCTACAGTAG
65 -AAAATCGCGCCCTTGTGGACGTGCTTTTGCTACAGTAG
55574831 CATGTTTGGG
Statistics
Matches: 207, Mismatches: 17, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
122 1 0.00
123 66 0.32
124 38 0.18
125 102 0.49
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.36
Consensus pattern (123 bp):
TTGACTTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTA
AAATCGCGCCCTTGTGGACGTGCTTTTGCTACAGTAGGTCATGGAAGAATATTTTTTT
Found at i:55578027 original size:37 final size:36
Alignment explanation
Indices: 55577953--55578029 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
55577943 ATTATGTGAA
* *
55577953 AGTAAAATTATTAATTGATAAATTATATTAATGGTT
1 AGTAAAATTATAAATTGATAAAATATATTAATGGTT
* *
55577989 AGTAAAATTATCAAATTATATAAAAT-TATTAATTGTT
1 AGTAAAATTAT-AAATT-GATAAAATATATTAATGGTT
55578026 AGTA
1 AGTA
55578030 CCAGGAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 11 0.31
37 18 0.51
38 6 0.17
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (36 bp):
AGTAAAATTATAAATTGATAAAATATATTAATGGTT
Found at i:55578121 original size:23 final size:23
Alignment explanation
Indices: 55578078--55578121 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
55578068 AAGTAAAATT
**
55578078 ATTAACTTAGTTTAATTTTTTTA
1 ATTAACTTAGTTTAAGGTTTTTA
*
55578101 ATTAACTTAGTTTAGGGTTTT
1 ATTAACTTAGTTTAAGGTTTT
55578122 AAAGTTAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (23 bp):
ATTAACTTAGTTTAAGGTTTTTA
Found at i:55578143 original size:22 final size:21
Alignment explanation
Indices: 55578112--55578209 Score: 119
Period size: 21 Copynumber: 4.6 Consensus size: 21
55578102 TTAACTTAGT
*
55578112 TTAGGGTTTTAAAGTTAAGGG
1 TTAGGTTTTTAAAGTTAAGGG
55578133 TTAGGATTTTT-AAGTTAAGGG
1 TTAGG-TTTTTAAAGTTAAGGG
* *
55578154 TTTAGGGTTTTAAAGTTAAGGA
1 -TTAGGTTTTTAAAGTTAAGGG
55578176 TTAGAGTTTTT-AAGTTAAGGG
1 TTAG-GTTTTTAAAGTTAAGGG
55578197 TTAAGGTTTTTAA
1 TT-AGGTTTTTAA
55578210 TTTAATTAGG
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
21 40 0.61
22 26 0.39
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.43
Consensus pattern (21 bp):
TTAGGTTTTTAAAGTTAAGGG
Found at i:55578159 original size:43 final size:43
Alignment explanation
Indices: 55578110--55578209 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
55578100 AATTAACTTA
*
55578110 GTTTAGGGTTTTAAAGTTAAGGGTTAG-GATTTTTAAGTTAAGG
1 GTTTAGGGTTTTAAAGTTAAGGATTAGAG-TTTTTAAGTTAAGG
55578153 GTTTAGGGTTTTAAAGTTAAGGATTAGAGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTAAAGTTAAGGATTAGAGTTTTTAAGTTAAGG
* *
55578196 GTTAAGGTTTTTAA
1 GTTTAGGGTTTTAA
55578210 TTTAATTAGG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
43 52 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.28, T:0.43
Consensus pattern (43 bp):
GTTTAGGGTTTTAAAGTTAAGGATTAGAGTTTTTAAGTTAAGG
Found at i:55578227 original size:23 final size:23
Alignment explanation
Indices: 55578195--55578681 Score: 534
Period size: 23 Copynumber: 21.9 Consensus size: 23
55578185 TTAAGTTAAG
*
55578195 GGTTAAGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
*
55578218 GGTTAGGGTTTTTTAAGTTAATTA
1 GGTTAGGG-TTTTTAATTTAATTA
*
55578242 GGTTAAGGTTTTTAA-TTAA--A
1 GGTTAGGGTTTTTAATTTAATTA
*
55578262 --ATAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
55578283 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
*
55578306 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTTAATTA
*
55578329 GGTTAGGGTTTTTTTAAGTTAATTA
1 GGTTAGGG--TTTTTAATTTAATTA
55578354 GGTTAGGGTTTTTAA-TTAA--A
1 GGTTAGGGTTTTTAATTTAATTA
*
55578374 --ATAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
55578395 GGTT-GGGATTTTTAATTTAATTA
1 GGTTAGGG-TTTTTAATTTAATTA
* *
55578418 GGTTAGGGTTTTTAAGTTAA--G
1 GGTTAGGGTTTTTAATTTAATTA
*
55578439 GGTTAGGGTTTTAAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
*
55578462 GGTTAGGGGTTTTTAATTTAATTG
1 GGTTA-GGGTTTTTAATTTAATTA
*
55578486 GGTTAGGGTTTTTTAAGTTAATTA
1 GGTTAGGG-TTTTTAATTTAATTA
*
55578510 GGTTAGGTTTTTTAA-TTAA--A
1 GGTTAGGGTTTTTAATTTAATTA
* * *
55578530 --ATAAGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTTAATTA
*
55578551 GGTTAGGGTTTTTTAAGTTAATTA
1 GGTTAGGG-TTTTTAATTTAATTA
*
55578575 GGTTAGTGTTTTTAA-TTAA--A
1 GGTTAGGGTTTTTAATTTAATTA
*
55578595 --ATAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
*
55578616 GGTTAGAGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAATTTAATTA
* *
55578639 GGTTAGAGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTTAATTA
* *
55578662 GGTTAGGATTTTTAAGTTAA
1 GGTTAGGGTTTTTAATTTAA
55578682 GGGTATTAAT
Statistics
Matches: 395, Mismatches: 39, Indels: 60
0.80 0.08 0.12
Matches are distributed among these distances:
18 44 0.11
19 15 0.04
20 4 0.01
21 22 0.06
22 19 0.05
23 185 0.47
24 85 0.22
25 21 0.05
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.49
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTTAATTA
Found at i:55578284 original size:18 final size:18
Alignment explanation
Indices: 55578248--55578307 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
55578238 ATTAGGTTAA
* *
55578248 GGTTTTTAATTAAAATAG
1 GGTTTTTAATTTAATTAG
55578266 GGTTTTTAATTTAATTAGGTTAG
1 GGTTTTTAATTT-A--A--TTAG
55578289 GGTTTTTAATTTAATTAG
1 GGTTTTTAATTTAATTAG
55578307 G
1 G
55578308 TTAGGGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
18 16 0.46
19 1 0.03
20 1 0.03
21 1 0.03
22 1 0.03
23 15 0.43
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (18 bp):
GGTTTTTAATTTAATTAG
Found at i:55578394 original size:89 final size:88
Alignment explanation
Indices: 55578155--55578681 Score: 469
Period size: 89 Copynumber: 5.9 Consensus size: 88
55578145 AGTTAAGGGT
* * * ** * *
55578155 TTAGGGTTTTAAAGTT-AAGGATTAGAGTTTTTAAGTTAAGGGTTAAGGTTTTTAATTTAATTAG
1 TTAGGGTTTTTAAGTTAAAGG-TTAGGGTTTTTAATTTAATAGATAGGGTTTTTAATTTAATTAG
55578219 GTTAGGGTTTTTTAAGTT-AATTAGG
65 GTTAGGG-TTTTTAA-TTAAATTAGG
* * *
55578244 TTAAGGTTTTTAA-TTAAA--ATAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTA
1 TTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTTAATTTAA-TA-GATAGGGTTTTTAATTTAATTA
55578306 GGTTAGGGTTTTTAATTAAATTAGG
64 GGTTAGGGTTTTTAATTAAATTAGG
55578331 TTAGGGTTTTTTTAAGTTAATTAGGTTAGGGTTTTTAA-TTAA-A-ATAGGGTTTTTAATTTAAT
1 TTAGGG--TTTTTAAGTTAA--AGGTTAGGGTTTTTAATTTAATAGATAGGGTTTTTAATTTAAT
*
55578393 TAGGTT-GGGATTTTTAATTTAATTAGG
62 TAGGTTAGGG-TTTTTAATTAAATTAGG
* * *
55578420 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTAAATTTAATTAGGTTAGGGGTTTTTAATTTAATT
1 TTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTTAATTTAA-TA-GATA-GGGTTTTTAATTTAATT
*
55578485 GGGTTAGGGTTTTTTAAGTT-AATTAGG
63 AGGTTAGGG-TTTTTAA-TTAAATTAGG
* * * * * *
55578512 TTAGGTTTTTTAA-TTAAA--ATAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTTAAGTTAATT
1 TTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTTAATTTAA-TA-GATAGGG-TTTTTAATTTAATT
*
55578574 AGGTTAGTGTTTTTAATTAAA--A--
63 AGGTTAGGGTTTTTAATTAAATTAGG
* * * * *
55578596 -TAGGGTTTTTAATTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTTTTAATTAAAT
1 TTAGGGTTTTTAAGTTAA--AGGTTAGGGTTTTTAATTTAA-TA-GATAGGGTTTTTAATTTAAT
*
55578660 TAGGTTAGGATTTTTAAGTTAA
62 TAGGTTAGGGTTTTTAA-TTAA
55578682 GGGTATTAAT
Statistics
Matches: 374, Mismatches: 36, Indels: 57
0.80 0.08 0.12
Matches are distributed among these distances:
83 11 0.03
84 4 0.01
85 14 0.04
86 23 0.06
87 59 0.16
88 75 0.20
89 108 0.29
90 6 0.02
91 26 0.07
92 30 0.08
93 6 0.02
94 12 0.03
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (88 bp):
TTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTTAATTTAATAGATAGGGTTTTTAATTTAATTAGG
TTAGGGTTTTTAATTAAATTAGG
Found at i:55578518 original size:29 final size:27
Alignment explanation
Indices: 55578459--55578518 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 27
55578449 TTAAATTTAA
*
55578459 TTAGGTTAGGGGTTTTTAATTTAATTG
1 TTAGGTTAGGGGTTTTTAAGTTAATTG
*
55578486 ---GGTTAGGGTTTTTTAAGTTAATTAGG
1 TTAGGTTAGGGGTTTTTAAGTTAATT--G
55578512 TTAGGTT
1 TTAGGTT
55578519 TTTTAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
24 21 0.81
26 1 0.04
29 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (27 bp):
TTAGGTTAGGGGTTTTTAAGTTAATTG
Found at i:55578553 original size:17 final size:18
Alignment explanation
Indices: 55578512--55578554 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
55578502 GTTAATTAGG
55578512 TTAGGTTTTTTAATTAAAA
1 TTAGG-TTTTTAATTAAAA
*
55578531 TAAGGTTTTTAATT-AAA
1 TTAGGTTTTTAATTAAAA
55578548 TTAGGTT
1 TTAGGTT
55578555 AGGGTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.41
18 9 0.41
19 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (18 bp):
TTAGGTTTTTAATTAAAA
Found at i:55578589 original size:244 final size:240
Alignment explanation
Indices: 55578176--55578685 Score: 624
Period size: 244 Copynumber: 2.1 Consensus size: 240
55578166 AAGTTAAGGA
* * *
55578176 TTAGAGTTTTTAAGTTAAGGGTTAAGGTTTTTAATTTAATTAGGTTAGGGTTTTTTAAGTTAATT
1 TTAGGGTTTTTAAGTTAAGGGTTAAGGTTTTAAATTTAATTAGGTTAGGGGTTTTTAAGTTAATT
*** * *
55578241 AGGTTAAGGTTTTTAATTAAAATAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTA
66 AGGTTAAGGTTTTTAATTAAAATAGGGTTTTT-ATTTAATTAAAATAAGGTTTTTAATTAAATTA
* *
55578306 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTTTAAGTTAATTAGGTTAGGGTTTTTAA-T
130 GGTTAGGGTTTTTAATTAAATTAGGTTA-GGTGTTTTTAA-TTAA--A--ATAGGGTTTTTAATT
* * *
55578370 TAA-A-ATAGGGTTTTTAATTTAATTAGGTT-GGGATTTTTAATTTAATTAGG
189 TAATAGATAGAGTTTTTAATTTAATTAGGTTAGAG-TTTTTAATTAAATTAGG
* *
55578420 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTAAATTTAATTAGGTTAGGGGTTTTTAATTTAATT
1 TTAGGGTTTTTAAGTTAAGGGTTAAGGTTTTAAATTTAATTAGGTTAGGGGTTTTTAAGTTAATT
* * *
55578485 GGGTTAGGGTTTTTTAAGTT-AATTA-GGTTAGGTTT-TTTAATTAAAATAAGGTTTTTAATTAA
66 AGGTTAAGG-TTTTTAA-TTAAAATAGGGTT---TTTATTTAATTAAAATAAGGTTTTTAATTAA
55578547 ATTAGGTTAGGGTTTTTTAAGTT-AATTAGGTTA-GTGTTTTTAATTAAAATAGGGTTTTTAATT
126 ATTAGGTTAGGG-TTTTTAA-TTAAATTAGGTTAGGTGTTTTTAATTAAAATAGGGTTTTTAATT
*
55578610 TAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTTTTAATTAAATTAGG
189 TAA-TA-GATAGAGTTTTTAATTTAATTAGGTTAGAGTTTTTAATTAAATTAGG
*
55578664 TTAGGATTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
55578686 ATTAATGGTT
Statistics
Matches: 233, Mismatches: 20, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
239 12 0.05
240 4 0.02
241 1 0.00
242 1 0.00
243 4 0.02
244 140 0.60
245 47 0.20
246 19 0.08
247 5 0.02
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (240 bp):
TTAGGGTTTTTAAGTTAAGGGTTAAGGTTTTAAATTTAATTAGGTTAGGGGTTTTTAAGTTAATT
AGGTTAAGGTTTTTAATTAAAATAGGGTTTTTATTTAATTAAAATAAGGTTTTTAATTAAATTAG
GTTAGGGTTTTTAATTAAATTAGGTTAGGTGTTTTTAATTAAAATAGGGTTTTTAATTTAATAGA
TAGAGTTTTTAATTTAATTAGGTTAGAGTTTTTAATTAAATTAGG
Found at i:55578619 original size:17 final size:17
Alignment explanation
Indices: 55578577--55578619 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
55578567 GTTAATTAGG
55578577 TTAGTGTTTTTAATTAAA
1 TTAG-GTTTTTAATTAAA
* *
55578595 ATAGGGTTTTTAATTTAA
1 TTA-GGTTTTTAATTAAA
55578613 TTAGGTT
1 TTAGGTT
55578620 AGAGTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.19
18 16 0.76
19 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.53
Consensus pattern (17 bp):
TTAGGTTTTTAATTAAA
Found at i:55578653 original size:41 final size:41
Alignment explanation
Indices: 55578210--55578656 Score: 314
Period size: 41 Copynumber: 10.2 Consensus size: 41
55578200 AGGTTTTTAA
* *
55578210 TTTAATTAGGTTAGGGTTTTTTAAGTTAATTAGGTTAAGGTT
1 TTTAATTAGGTTAGGG-TTTTTAATTTAATTAGGTTAGGGTT
***
55578252 TTTAATTAAAATAGGGTTTTTAATTTAATTAGGTTAGGGTTTTT
1 TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGG---TT
*
55578296 AATTTAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTT
1 --TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGG----TT
* * *
55578343 TAAGTTAATTAGGTTAGGGTTTTTAATTAAAATAGGGTT---TTT
1 T---TTAATTAGGTTAGGGTTTTTAATTTAATTA-GGTTAGGGTT
55578385 AATTTAATTAGGTT-GGGATTTTTAATTTAATTAGGTTAGGGTT
1 --TTTAATTAGGTTAGGG-TTTTTAATTTAATTAGGTTAGGGTT
*
55578428 TTTAAGTTAAGGGTTAGGGTTTTAAATTTAATTAGGTTAGGGGTT
1 TTTAA-TT-A-GGTTAGGGTTTTTAATTTAATTAGGTTA-GGGTT
* *
55578473 TTTAATTTAATTGGGTTAGGGTTTTTTAAGTTAATTAGGTTAGGTTT
1 TTTAA-TT-A---GGTTAGGG-TTTTTAATTTAATTAGGTTAGGGTT
*** * *
55578520 TTTAATTAAAATAAGGTTTTTAATTAAATTAGGTTAGGGTTTTT
1 TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGG---TT
* * * *
55578564 TAAGTTAATTAGGTTAGTGTTTTTAATTAAAATAGGGTT---TTT
1 T---TTAATTAGGTTAGGGTTTTTAATTTAATTA-GGTTAGGGTT
* *
55578606 AATTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTT
1 --TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTT
55578649 TTTAATTA
1 TTTAATTA
55578657 AATTAGGTTA
Statistics
Matches: 332, Mismatches: 37, Indels: 73
0.75 0.08 0.17
Matches are distributed among these distances:
40 11 0.03
41 105 0.32
42 23 0.07
43 5 0.02
44 30 0.09
45 19 0.06
46 37 0.11
47 47 0.14
48 51 0.15
49 4 0.01
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (41 bp):
TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTT
Found at i:55578730 original size:9 final size:9
Alignment explanation
Indices: 55578712--55578748 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
55578702 ATTCTCAAAT
55578712 AATA-TCAA
1 AATATTCAA
55578720 AATATTCAA
1 AATATTCAA
*
55578729 AATATGCAA
1 AATATTCAA
55578738 AATATTCAA
1 AATATTCAA
55578747 AA
1 AA
55578749 ATTTCTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (9 bp):
AATATTCAA
Found at i:55578740 original size:18 final size:17
Alignment explanation
Indices: 55578712--55578748 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
55578702 ATTCTCAAAT
55578712 AATATCAAAATATTCAA
1 AATATCAAAATATTCAA
55578729 AATATGCAAAATATTCAA
1 AATAT-CAAAATATTCAA
55578747 AA
1 AA
55578749 ATTTCTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (17 bp):
AATATCAAAATATTCAA
Found at i:55579264 original size:18 final size:18
Alignment explanation
Indices: 55579226--55579265 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
55579216 GACTCGGAAA
* *
55579226 AGGATACATATAAGGGTT
1 AGGATACATATAAGAGCT
55579244 AGGATACATATAAGAGCT
1 AGGATACATATAAGAGCT
55579262 AGGA
1 AGGA
55579266 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.28, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:55579926 original size:7 final size:7
Alignment explanation
Indices: 55579916--55579948 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
55579906 TTATATACAT
55579916 AATACTA
1 AATACTA
55579923 AATACTA
1 AATACTA
55579930 AATACTA
1 AATACTA
55579937 AATACTA
1 AATACTA
55579944 AATAC
1 AATAC
55579949 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:55581175 original size:17 final size:16
Alignment explanation
Indices: 55581136--55581167 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
55581126 ATTTTGGAAG
55581136 GAAATTGAGAGAATAA
1 GAAATTGAGAGAATAA
55581152 GAAAATTGAGAGAATA
1 G-AAATTGAGAGAATA
55581168 TTGAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (16 bp):
GAAATTGAGAGAATAA
Found at i:55584123 original size:20 final size:19
Alignment explanation
Indices: 55584094--55584133 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
55584084 CTCCAAATTT
*
55584094 TGTTCTCTGCTGGTGCTGG
1 TGTTCTCTGCTGGCGCTGG
55584113 TGTTCCTCTGCTGGCGCTGG
1 TGTT-CTCTGCTGGCGCTGG
55584133 T
1 T
55584134 TCTTTGTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.00, C:0.25, G:0.35, T:0.40
Consensus pattern (19 bp):
TGTTCTCTGCTGGCGCTGG
Found at i:55584143 original size:25 final size:25
Alignment explanation
Indices: 55584113--55584171 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
55584103 CTGGTGCTGG
55584113 TGTTCCTCTGCTGGCGCTGGTTCTT
1 TGTTCCTCTGCTGGCGCTGGTTCTT
* *
55584138 TGTTCCTCAGCTGGTGCTGGTTCTT
1 TGTTCCTCTGCTGGCGCTGGTTCTT
55584163 TGTTCCTCT
1 TGTTCCTCT
55584172 TCTCCACATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.02, C:0.27, G:0.25, T:0.46
Consensus pattern (25 bp):
TGTTCCTCTGCTGGCGCTGGTTCTT
Found at i:55585600 original size:41 final size:41
Alignment explanation
Indices: 55585555--55585637 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
55585545 TGTTCAACAG
*
55585555 TTCCGAAGACAATCAGTCTAATATTTTTCTCTTAATCAGTA
1 TTCCGAAGACAATCAATCTAATATTTTTCTCTTAATCAGTA
55585596 TTCCGAAGACAATCAATCTAATATTTTTCTCTTAATCAGTA
1 TTCCGAAGACAATCAATCTAATATTTTTCTCTTAATCAGTA
55585637 T
1 T
55585638 CCCAACCAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (41 bp):
TTCCGAAGACAATCAATCTAATATTTTTCTCTTAATCAGTA
Found at i:55593410 original size:10 final size:9
Alignment explanation
Indices: 55593392--55593425 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
55593382 AAGCCATTTT
55593392 AAATTTTAA
1 AAATTTTAA
55593401 AAATTATTAA
1 AAATT-TTAA
55593411 AAATTTATAA
1 AAATTT-TAA
55593421 AAATT
1 AAATT
55593426 ATATACTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AAATTTTAA
Found at i:55593430 original size:11 final size:11
Alignment explanation
Indices: 55593398--55593430 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
55593388 TTTTAAATTT
55593398 TAAAAATTAT-
1 TAAAAATTATA
55593408 TAAAAATT-TA
1 TAAAAATTATA
55593418 TAAAAATTATA
1 TAAAAATTATA
55593429 TA
1 TA
55593431 CTCATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.05
10 16 0.76
11 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:55597325 original size:10 final size:10
Alignment explanation
Indices: 55597312--55597343 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
55597302 TAATTAAGCA
*
55597312 AATTAAGATT
1 AATTAAAATT
55597322 AATTAAAATT
1 AATTAAAATT
55597332 AATTAAAATT
1 AATTAAAATT
55597342 AA
1 AA
55597344 AACATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
AATTAAAATT
Found at i:55600663 original size:26 final size:27
Alignment explanation
Indices: 55600605--55600668 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
55600595 AGAACACTCA
55600605 AATTTTTCAAAAGCACTTCTTAAAAAT
1 AATTTTTCAAAAGCACTTCTTAAAAAT
* * *
55600632 ACTTTTTC-ACAGCACTT-TTCAAAAGT
1 AATTTTTCAAAAGCACTTCTT-AAAAAT
55600658 AA-TTTTCAAAA
1 AATTTTTCAAAA
55600669 ACAATAAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
25 7 0.23
26 16 0.53
27 7 0.23
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.38
Consensus pattern (27 bp):
AATTTTTCAAAAGCACTTCTTAAAAAT
Found at i:55606365 original size:105 final size:105
Alignment explanation
Indices: 55606253--55606454 Score: 253
Period size: 105 Copynumber: 1.9 Consensus size: 105
55606243 AACATCAGGC
* * **
55606253 TCAATGCCTCGTTTTATCATTGTGTCAACAATATCCT-CAGCTTTAGAAACCATCCCTTCTTTGC
1 TCAATGCCTCGCTTTATCATTGTGTCAACAATAT-CTACAGCTTTACAAACCATCCCTTCCGTGC
* *
55606317 AATGTGCATCAACCAATGTAGAATACGTGACAACATTGGGT
65 AAAGTGCATCAACCAATATAGAATACGTGACAACATTGGGT
* * * * * * *
55606358 TCAATGCCTTGCTTTCTCATTGTGTTAACGATCTCTACAGCTTTACAAATCATTCCTTCCGTGCA
1 TCAATGCCTCGCTTTATCATTGTGTCAACAATATCTACAGCTTTACAAACCATCCCTTCCGTGCA
* *
55606423 AAGTGCATCAACCAATATGGTATACGTGACAA
66 AAGTGCATCAACCAATATAGAATACGTGACAA
55606455 TATCAAGTGA
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
104 2 0.02
105 79 0.98
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (105 bp):
TCAATGCCTCGCTTTATCATTGTGTCAACAATATCTACAGCTTTACAAACCATCCCTTCCGTGCA
AAGTGCATCAACCAATATAGAATACGTGACAACATTGGGT
Found at i:55610017 original size:14 final size:14
Alignment explanation
Indices: 55609998--55610053 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
55609988 ATTTTTAAAA
55609998 ATTTTAAAAAAAGT
1 ATTTTAAAAAAAGT
*
55610012 ATTTTAAAATTAAAAAAT
1 ATTTT--AA--AAAAAGT
*
55610030 TTTTTAAAAAAAGT
1 ATTTTAAAAAAAGT
55610044 ATTTTAAAAA
1 ATTTTAAAAA
55610054 TATTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 20 0.59
16 4 0.12
18 10 0.29
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (14 bp):
ATTTTAAAAAAAGT
Found at i:55610020 original size:32 final size:32
Alignment explanation
Indices: 55609979--55610073 Score: 117
Period size: 32 Copynumber: 3.0 Consensus size: 32
55609969 GGCCCATTTT
55609979 TATTTTAAAATTTTTAAAAATTTTAAAAAAAG
1 TATTTTAAAATTTTTAAAAATTTTAAAAAAAG
*
55610011 TATTTTAAAA--TTAAAAAATTTTTTAAAAAAAG
1 TATTTTAAAATTTTTAAAAA--TTTTAAAAAAAG
55610043 TATTTTAAAAATATTTT-AAAA-TTTAAAAAAA
1 TATTTT-AAAAT-TTTTAAAAATTTTAAAAAAA
55610074 TTAAAAAAGT
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
30 7 0.13
32 38 0.69
33 4 0.07
35 4 0.07
36 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (32 bp):
TATTTTAAAATTTTTAAAAATTTTAAAAAAAG
Found at i:55610038 original size:11 final size:11
Alignment explanation
Indices: 55609979--55610115 Score: 50
Period size: 10 Copynumber: 13.2 Consensus size: 11
55609969 GGCCCATTTT
55609979 TATTTT-AAAA
1 TATTTTAAAAA
55609989 T-TTTTAAAAA
1 TATTTTAAAAA
*
55609999 T-TTTAAAAAAA
1 TATTT-TAAAAA
55610010 GTATTTT--AAA
1 -TATTTTAAAAA
*
55610020 -A-TTAAAAAA
1 TATTTTAAAAA
*
55610029 TTTTTTAAAAAAA
1 TATTTT--AAAAA
55610042 GTATTTTAAAAA
1 -TATTTTAAAAA
55610054 TATTTT--AAA
1 TATTTTAAAAA
55610063 -A-TTTAAAAA
1 TATTTTAAAAA
* *
55610072 -AATTAAAAAA
1 TATTTTAAAAA
* *
55610082 GTATGTAAAAAA
1 -TATTTTAAAAA
55610094 TATTTT-AAAA
1 TATTTTAAAAA
*
55610104 T-TTTAAAAAA
1 TATTTTAAAAA
55610114 TA
1 TA
55610116 AATATATTTA
Statistics
Matches: 97, Mismatches: 12, Indels: 35
0.67 0.08 0.24
Matches are distributed among these distances:
7 5 0.05
8 2 0.02
9 17 0.18
10 29 0.30
11 17 0.18
12 14 0.14
13 8 0.08
14 5 0.05
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:55610047 original size:16 final size:16
Alignment explanation
Indices: 55609999--55610048 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
55609989 TTTTTAAAAA
55609999 TTTTAAAAAAAGTA--
1 TTTTAAAAAAAGTATT
**
55610013 TTTTAAAATTAAAAAATT
1 TTTTAAAA--AAAGTATT
55610031 TTTTAAAAAAAGTATT
1 TTTTAAAAAAAGTATT
55610047 TT
1 TT
55610049 AAAAATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 8 0.29
16 12 0.43
18 8 0.29
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (16 bp):
TTTTAAAAAAAGTATT
Found at i:55610093 original size:40 final size:41
Alignment explanation
Indices: 55610004--55610114 Score: 136
Period size: 40 Copynumber: 2.7 Consensus size: 41
55609994 AAAAATTTTA
* *
55610004 AAAAAAGTATTTTAAAA-TTAAAAAATTTTTTAAAAAAAGTATTT
1 AAAAAA-TATTTTAAAATTTAAAAAA---ATTAAAAAAAGTATGT
*
55610048 TAAAAATATTTTAAAATTTAAAAAAATT-AAAAAAGTATGT
1 AAAAAATATTTTAAAATTTAAAAAAATTAAAAAAAGTATGT
*
55610088 AAAAAATATTTTAAAATTTTAAAAAAT
1 AAAAAATATTTTAAAATTTAAAAAAAT
55610115 AAATATATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
40 36 0.59
41 2 0.03
43 10 0.16
44 13 0.21
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (41 bp):
AAAAAATATTTTAAAATTTAAAAAAATTAAAAAAAGTATGT
Found at i:55611597 original size:31 final size:29
Alignment explanation
Indices: 55611554--55611633 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
55611544 ATCTCAAAAG
55611554 TATATATGAACTTT-AGTTTAATGTGTAATTT
1 TATATATGAACTTTGA-TTT--TGTGTAATTT
*
55611585 TATATATTAACTTTGATTTTGTGTAATTT
1 TATATATGAACTTTGATTTTGTGTAATTT
* *
55611614 TATACATGAAATTTTGATTT
1 TATATATG-AACTTTGATTT
55611634 GATCCAATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
29 16 0.37
30 10 0.23
31 16 0.37
32 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.54
Consensus pattern (29 bp):
TATATATGAACTTTGATTTTGTGTAATTT
Found at i:55613528 original size:23 final size:23
Alignment explanation
Indices: 55613498--55613561 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
55613488 TTTTATGCAC
55613498 GCAAGTGATAGTGGCACTACGAT
1 GCAAGTGATAGTGGCACTACGAT
* *** * *
55613521 GCAAGTGAAAGCAACACTATGGT
1 GCAAGTGATAGTGGCACTACGAT
*
55613544 GCAAGTGTTAGTGGCACT
1 GCAAGTGATAGTGGCACT
55613562 TCTGTACAAA
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (23 bp):
GCAAGTGATAGTGGCACTACGAT
Found at i:55615890 original size:50 final size:50
Alignment explanation
Indices: 55615775--55615967 Score: 296
Period size: 50 Copynumber: 3.8 Consensus size: 50
55615765 GATAATAACA
* ** * *
55615775 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
55615826 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
55615876 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
55615926 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
55615968 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 96 0.74
51 33 0.26
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:55616082 original size:13 final size:13
Alignment explanation
Indices: 55616061--55616091 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
55616051 GCTTAGATCA
*
55616061 TCATCAAATAAAT
1 TCATAAAATAAAT
55616074 TCATAAAATAAAT
1 TCATAAAATAAAT
55616087 TCATA
1 TCATA
55616092 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:55616338 original size:30 final size:30
Alignment explanation
Indices: 55616303--55616360 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
55616293 CCTCGACTCT
*
55616303 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
55616333 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
55616361 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:55623384 original size:51 final size:50
Alignment explanation
Indices: 55623271--55623503 Score: 181
Period size: 51 Copynumber: 4.8 Consensus size: 50
55623261 TGATATAACA
* ** *
55623271 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGG
* * * *
55623322 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
55623372 TGCCAAACGCCATGTCCCAGACA----CTTACATGGGACCTCTCGTCTCGG
1 TGCC-AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * **
55623419 TGCCCATGCCATGTCCC--ACATGGACCTCT-CAT--GA--TCT--T-AAGG
1 TGCCAATGCCATGTCCCAGACATGG-TCT-TACATGGGACCTCTCGTCTCGG
*
55623461 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
55623504 TTACCCAAAT
Statistics
Matches: 147, Mismatches: 19, Indels: 35
0.73 0.09 0.17
Matches are distributed among these distances:
42 2 0.01
43 18 0.12
44 8 0.05
45 9 0.06
46 13 0.09
47 27 0.18
48 3 0.02
49 6 0.04
50 12 0.08
51 49 0.33
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:55623612 original size:13 final size:13
Alignment explanation
Indices: 55623596--55623627 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
55623586 TGCTTGATCA
*
55623596 TCATCAAATAAAT
1 TCATAAAATAAAT
55623609 TCATAAAATAAAT
1 TCATAAAATAAAT
55623622 TCATAA
1 TCATAA
55623628 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:55626382 original size:50 final size:50
Alignment explanation
Indices: 55626258--55626446 Score: 272
Period size: 50 Copynumber: 3.8 Consensus size: 50
55626248 GATAATAACA
* ** * *
55626258 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCAT-CTCGG
* * *
55626309 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
55626359 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
55626409 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAC
55626447 TCTTTACCCA
Statistics
Matches: 124, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
49 1 0.01
50 90 0.73
51 33 0.27
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:55626564 original size:13 final size:13
Alignment explanation
Indices: 55626543--55626574 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
55626533 GCTTGGATCA
*
55626543 TCATCAAATAAAT
1 TCATAAAATAAAT
55626556 TCATAAAATAAAT
1 TCATAAAATAAAT
55626569 TCATAA
1 TCATAA
55626575 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:55626819 original size:30 final size:30
Alignment explanation
Indices: 55626784--55626841 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
55626774 CCTCGACTCT
*
55626784 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
55626814 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
55626842 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:55633887 original size:50 final size:50
Alignment explanation
Indices: 55633772--55633964 Score: 296
Period size: 50 Copynumber: 3.8 Consensus size: 50
55633762 GATAATAACA
* ** * *
55633772 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
55633823 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
55633873 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
55633923 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
55633965 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 96 0.74
51 33 0.26
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:55634079 original size:13 final size:13
Alignment explanation
Indices: 55634058--55634088 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
55634048 GCTTAGATCA
*
55634058 TCATCAAATAAAT
1 TCATAAAATAAAT
55634071 TCATAAAATAAAT
1 TCATAAAATAAAT
55634084 TCATA
1 TCATA
55634089 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:55634335 original size:30 final size:30
Alignment explanation
Indices: 55634300--55634357 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
55634290 CCTCGACTCT
*
55634300 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
55634330 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
55634358 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:55647349 original size:45 final size:44
Alignment explanation
Indices: 55647293--55647379 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 44
55647283 AACTTAATTT
*
55647293 AATTGTTTTATTATT-TATTTTGAAGCAAATAAAATTATATTTTTA
1 AATTATTTTATT-TTATATTTTGAAGCAAATAAAATTAT-TTTTTA
*
55647338 AATTATTTTATTTTATATTTTGAAGCAAATAAGATTATTTTT
1 AATTATTTTATTTTATATTTTGAAGCAAATAAAATTATTTTT
55647380 AGGTGAGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
44 6 0.15
45 33 0.85
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (44 bp):
AATTATTTTATTTTATATTTTGAAGCAAATAAAATTATTTTTTA
Found at i:55649400 original size:16 final size:16
Alignment explanation
Indices: 55649379--55649410 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
55649369 TTCTCATTAG
55649379 TAGATGGTACAGTTTA
1 TAGATGGTACAGTTTA
55649395 TAGATGGTACAGTTTA
1 TAGATGGTACAGTTTA
55649411 GGGCCACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (16 bp):
TAGATGGTACAGTTTA
Found at i:55654656 original size:14 final size:15
Alignment explanation
Indices: 55654624--55654661 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
55654614 GATAAAATAA
55654624 TAATTTAA-TATTAT
1 TAATTTAATTATTAT
55654638 T-ATTTAATTATT-T
1 TAATTTAATTATTAT
55654651 TAATTTAATTA
1 TAATTTAATTA
55654662 GTGATAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TAATTTAATTATTAT
Found at i:55667751 original size:30 final size:30
Alignment explanation
Indices: 55667715--55667889 Score: 278
Period size: 30 Copynumber: 5.8 Consensus size: 30
55667705 ACTTTTCTCA
55667715 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
55667745 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
55667775 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
** *
55667805 ACTAGCCACTATTTTTTCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
55667835 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
* *
55667865 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCA
55667890 CTTGTACCTA
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 135 1.00
ACGTcount: A:0.25, C:0.47, G:0.03, T:0.24
Consensus pattern (30 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCC
Found at i:55677506 original size:30 final size:30
Alignment explanation
Indices: 55677470--55677672 Score: 338
Period size: 30 Copynumber: 6.8 Consensus size: 30
55677460 TAGGTACAAG
* * *
55677470 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
55677500 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
55677530 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
55677560 TGGTGGTGG-AAAAG-GTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
55677588 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* *
55677618 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
55677648 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGT
55677673 TGAGAAAAGT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
28 23 0.14
29 10 0.06
30 132 0.80
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:55677621 original size:88 final size:89
Alignment explanation
Indices: 55677470--55677672 Score: 345
Period size: 88 Copynumber: 2.3 Consensus size: 89
55677460 TAGGTACAAG
* *
55677470 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
1 TGGTGGTGGA-AAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
55677535 GTGGAAAAAGAGTGGCTAGTGGAGT
65 GTGGAAAAAGAGTGGCTAGTGGAGT
55677560 TGGTGGTGGAAAAG-GTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGG
1 TGGTGGTGGAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGG
* *
55677624 TGGAAAAGGTGTGGCTAGTGGAGT
66 TGGAAAAAGAGTGGCTAGTGGAGT
55677648 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAA-GAGTGGCTAGT
55677673 TGAGAAAAGT
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
88 85 0.79
89 4 0.04
90 19 0.18
ACGTcount: A:0.23, C:0.03, G:0.49, T:0.25
Consensus pattern (89 bp):
TGGTGGTGGAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGG
TGGAAAAAGAGTGGCTAGTGGAGT
Found at i:55678437 original size:14 final size:14
Alignment explanation
Indices: 55678418--55678467 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
55678408 GAGTTGATTT
* *
55678418 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
55678432 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
55678447 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
55678461 TT-AAAAA
1 TTGAAAAA
55678468 TACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:55678817 original size:74 final size:73
Alignment explanation
Indices: 55678447--55680026 Score: 810
Period size: 73 Copynumber: 20.3 Consensus size: 73
55678437 AAAACAGAAA
* * *
55678447 TTGAAAAGCAGAAATTAAAAATACCTCAGCATGTGAGCC-GAGACTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATA
55678511 TGAGTTGATTTTT
63 TGAGTTGA--TTT
55678524 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
55678589 AGTTGATTTT
65 AGTTGA-TTT
* ** * * *
55678599 TTTACGAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATA
*
55678663 TGAGTTAATTT
63 TGAGTTGATTT
* * * *
55678674 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
55678739 GTTGATTT
66 GTTGATTT
* * *
55678747 TTGAAAAACAAAAATTTAAAAATACCTTAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
55678812 GGTTGATTTTTTT
65 AGTTGA----TTT
* ** * ** * * * * *
55678825 TTTACGAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAG-CATGTGAGC-CGAGGCTCAAC
1 TTGAAAAACAGAAATT-AA-AA-A-TACCT---CAG-CGT--GTCCTGAG-GCTC-A-ACTC---
* *
55678888 TCACCTATCGCAATATGAGTTAATTT
50 --ACCTCTCGCAATATGAGTTGATTT
* * * * *
55678914 TTGACAAATAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
55678979 GTTAATTT
66 GTTGATTT
* * *
55678987 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
55679052 GTTGA-TT
66 GTTGATTT
* ** * *** * *
55679059 TT-AAAAACAGAAATTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGC-CAAGGCTCAACT
1 TTGAAAAACAGAAATT-AAAA--A-TACCTCAGCGT--GTC--C-TGAG-GCTCAA--CT-----
** * *
55679122 CACCTCTTACAATATGAGCTAATTT
49 CACCTCTCGCAATATGAGTTGATTT
** * **
55679147 TTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
55679212 GTTGATTTTTT
66 GTTGA---TTT
* ** * * *
55679223 TTTACGAACAAAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATA
*
55679287 TGAGTTAATTT
63 TGAGTTGATTT
* * * * *
55679298 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
55679363 GTTAATTT
66 GTTGATTT
*
55679371 TTGAAAAACAGAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
55679436 AGTTAATTTTT
65 AGTTGA--TTT
* ** * ** * * * * *
55679447 TTTACGAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAG-CAT-ATGAGC-CGAGGCTCAA
1 TTGAAAAACAGAAATT-AA-AA-A-TACCT---CAG-CGT--GTCCTGA-G-GCTC-A-ACTCAC
* *
55679509 CTCAC-C--TATCGCAATTGAGTTAATT
52 CTCTCGCAATAT-G-AGTTGA--T--TT
* * * *
55679534 TTTAACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAA-AAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
55679599 AGTTGATTT
65 AGTTGATTT
* * *
55679608 TTGAAAAATAAAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
55679673 AGTTGATTTTTTT
65 AGTTGA----TTT
* ** * ** * * * * *
55679686 TTTACGAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAG-CATGTGAGC-CGAGGCTCAAC
1 TTGAAAAACAGAAATT-AA-AA-A-TACCT---CAG-CGT--GTCCTGAG-GCTC-A-ACTC---
55679749 TCACCTCTCGCAATATGAGTTGATTT
50 --ACCTCTCGCAATATGAGTTGATTT
* * * * *
55679775 TTGAAAAATAGAAATTGAAAACACCTCAGCATG---TGAGGCTCAACTCACCTCTCGCAATATAA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
55679837 GTTGATTT
66 GTTGATTT
* * * * *
55679845 TTGAAAAACATAAATTGAGCAGAAATTGAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTC
1 TTG------A-AAA---A-CAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
55679910 TCGCAATATGAGTTGATTTT
55 TCGCAATATGAGTTGA-TTT
** * * ** * * * *
55679930 TTG---ATGATAAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCACAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
55679992 GTTGATTTT
66 GTTGA-TTT
*
55680001 TTGAATTAAAACAGAAATTGAAAATA
1 TTG-A--AAAACAGAAATTAAAAATA
55680027 GAAATGGAAA
Statistics
Matches: 1181, Mismatches: 191, Indels: 262
0.72 0.12 0.16
Matches are distributed among these distances:
70 26 0.02
71 75 0.06
72 11 0.01
73 216 0.18
74 173 0.15
75 85 0.07
76 118 0.10
77 52 0.04
78 96 0.08
79 20 0.02
80 25 0.02
81 33 0.03
82 8 0.01
83 8 0.01
84 43 0.04
85 29 0.02
86 20 0.02
87 37 0.03
88 26 0.02
89 41 0.03
93 39 0.03
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (73 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:55678849 original size:14 final size:14
Alignment explanation
Indices: 55678830--55678857 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
55678820 TTTTTTTTAC
55678830 GAACAGAAATTGAA
1 GAACAGAAATTGAA
55678844 GAACAGAAATTGAA
1 GAACAGAAATTGAA
55678858 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:55679083 original size:14 final size:14
Alignment explanation
Indices: 55679061--55679092 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
55679051 AGTTGATTTT
55679061 AAAAACAGAAATTG
1 AAAAACAGAAATTG
*
55679075 AAAACCAGAAATTG
1 AAAAACAGAAATTG
55679089 AAAA
1 AAAA
55679093 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.09, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAAACAGAAATTG
Found at i:55679147 original size:87 final size:85
Alignment explanation
Indices: 55678987--55679147 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 85
55678977 GAGTTAATTT
* * *
55678987 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCACAATATGA
* *
55679052 GTTGATTTTAAAAACAGAAA
66 GCTAATTTTAAAAACAGAAA
*
55679072 TTGA-AAACCAGAAATTGAAAATACCTCAGCGTGTGAGCC-AAGGCTCAACTCACCTCTTACAAT
1 TTGACAAA-CAGAAATTGAAAATACCTCAGCGTGT---CCTAAGGCTCAACTCACCTCTCACAAT
55679135 ATGAGCTAATTTT
62 ATGAGCTAATTTT
55679148 TGATGAACAT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
84 3 0.05
85 29 0.44
87 32 0.48
88 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (85 bp):
TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCACAATATGA
GCTAATTTTAAAAACAGAAA
Found at i:55679269 original size:384 final size:384
Alignment explanation
Indices: 55678458--55680002 Score: 1614
Period size: 384 Copynumber: 4.0 Consensus size: 384
55678448 TGAAAAGCAG
* *
55678458 AAATTAAAAATACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTAAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATT
* * *
55678523 TTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTGACAAACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
* * ** * *
55678588 GAGTTGATTTTTTTACGAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCAC
130 GAGTT-AATTTTTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCAC
* * *
55678652 CTCTCGCAATATGAGTTAATTTTT-------G--A---CAAACAGAAATTGAAATTACCTCAGCG
191 CTCTCGCAATATGAGTTGATTTTTAAAAACAGAAATTGAAAACAGAAATTGAAAATACCTCAGCG
* * * *
55678705 TGT-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTTAAAAA
256 TGTGGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGATAAACATAAA-TT-AAAA
* * *
55678769 TACCTTAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGGGTTGATTTTTTTTTTACGAAC
319 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTACGAAC
*
55678834 AG
383 AA
*
55678836 AAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTATCGCAA
1 AAATT-----A-A-AAA-T------ACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAA
* *
55678901 TATGAGTT-A-ATTTTTGACAAATAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCA
52 TATGAGTTGATATTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA
* *
55678964 CCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
117 CCTCTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGC
55679029 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTAAAAACAGAAATTGAAAACCAGAAATTGAAAA
182 TCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACAGAAATTGAAAA-CAGAAATTGAAAA
* ** * *
55679093 TACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTACAATATGAGCTAATTTTTGATGAACAT
246 TACCTCAGCGTGTG-GCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGATAAACAT
*
55679158 AAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
310 AAATTAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
55679223 TTTACGAACAA
374 TTTACGAACAA
* *
55679234 AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-ATT
1 AAATTAAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATT
* *
55679297 TTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTATCGCAATATG
66 TTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
* *
55679362 AGTTAATTTTTGAAAAACAGAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCT
131 AGTTAATTTTTGAAAAACAGAAA-TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
* ** * *
55679427 CGCAATATGAGTTAATTTTTTTTACGAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCA
195 CGCAATATGAGTTGA---TTTTTAAAAACAGAAATTGAA-AACAGAAATTGAAAATACCTCAGCG
* * * * * *
55679492 TATGAGCCGAGGCTCAACTCACCTATCGCAAT-TGAGTTAATTTTTAACAAACAGAAATTGAAAT
256 TGTG-GCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGATAAACATAAATT-AAAA
* * ** *
55679556 TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAATA
319 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACA
55679618 A
384 A
* *
55679619 AAATTTAAAAATACATCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AAA-TTAAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
* * **
55679681 TTTTTTTTACGAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTC
62 -TATTTTT--G-AC---------A-AACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTC
* * * *
55679746 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAAAACACCTCAGCATG---
111 AACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCC
* * *
55679808 TGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACATAAATTG--AGCAGAAAT
176 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAAACAGAAATTGAAAACAGAAAT
* * * * *
55679871 TGAAAATACCTCAACG-G-GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
240 TGAAAATACCTCAGCGTGTGGC-CGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGA
* ** * * * *
55679934 T---GATAAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCACAATATGAGTTG
303 TAAACATAAATT-AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
55679996 ATTTTTT
367 ATTTTTT
55680003 GAATTAAAAC
Statistics
Matches: 996, Mismatches: 104, Indels: 117
0.82 0.09 0.10
Matches are distributed among these distances:
378 5 0.01
383 3 0.00
384 170 0.17
385 75 0.08
386 50 0.05
388 99 0.10
389 125 0.13
390 18 0.02
391 5 0.01
392 103 0.10
393 23 0.02
394 7 0.01
395 31 0.03
397 8 0.01
398 61 0.06
399 47 0.05
400 76 0.08
401 1 0.00
402 22 0.02
403 15 0.02
404 52 0.05
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (384 bp):
AAATTAAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATT
TTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTAAAAACAGAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGTGG
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGATAAACATAAATTAAAATACCTCA
GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAA
Found at i:55679357 original size:151 final size:146
Alignment explanation
Indices: 55679083--55679684 Score: 578
Period size: 151 Copynumber: 3.9 Consensus size: 146
55679073 TGAAAACCAG
* * ** *
55679083 AAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTACAATATGAGCTAATTTT
1 AAATTGAAAATACCTCAGC--GTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
** * ** * *
55679148 TGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
64 TGACAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTATCGCAATATGAG
* *
55679213 TTGATTTTTTTTTACGAACAA
129 TT-A--ATTTTTTACAAACAA
55679234 AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
1 AAATTGAAAATACCTCAGC--GTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
* *
55679299 TGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTATCGCAATATGAG
64 TGACAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTATCGCAATATGAG
* *
55679364 TTAATTTTTGAAAAACAGA
129 TTAATTTTTTACAAACA-A
* * * *
55679383 AATTTAAAAATACATCAGCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
1 AAATTGAAAATACCTCAGCGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTAA---TT
* * * **
55679447 TTTACGAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATATGAGCCGAGGCTCAACTC
62 TTT--G-AC---------A-AACAGAAATTAAAAATACCTCAGC--GTGTCCCGAGGCTCAACTC
* *
55679512 ACCTATCGCAAT-TGAGTTAATTTTTAACAAACAG
112 ACCTATCGCAATATGAGTTAATTTTTTACAAACAA
* ** *
55679546 AAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTG
* * * * * *
55679611 AAAAATAAAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
66 ACAAACAGAAA-TTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTATCGCAATATGAGT
*
55679676 TGATTTTTT
130 TAATTTTTT
55679685 TTTTACGAAC
Statistics
Matches: 379, Mismatches: 49, Indels: 50
0.79 0.10 0.10
Matches are distributed among these distances:
146 28 0.07
147 54 0.14
148 24 0.06
149 17 0.04
150 6 0.02
151 118 0.31
152 1 0.00
153 2 0.01
157 1 0.00
158 1 0.00
160 5 0.01
162 1 0.00
163 72 0.19
164 21 0.06
165 28 0.07
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (146 bp):
AAATTGAAAATACCTCAGCGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTG
ACAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTATCGCAATATGAGTT
AATTTTTTACAAACAA
Found at i:55679471 original size:14 final size:14
Alignment explanation
Indices: 55679452--55679479 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
55679442 TTTTTTTTAC
55679452 GAACAGAAATTGAA
1 GAACAGAAATTGAA
55679466 GAACAGAAATTGAA
1 GAACAGAAATTGAA
55679480 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:55679650 original size:237 final size:240
Alignment explanation
Indices: 55679228--55680659 Score: 1055
Period size: 237 Copynumber: 5.9 Consensus size: 240
55679218 TTTTTTTTAC
* * *
55679228 GAACAAAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 GAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
55679293 AATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTATCGCAA
66 AATTTTTAACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA
* *
55679358 TATGAGTTAATTTTTGAAAAACAGAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAACTCAC
131 TATGAGTTGATTTTTGAAAAACAAAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAACTCAC
55679423 CTCTCGCAATATGAGTT-A-ATTTTTTTTACGAACAGAAATTGAA
196 CTCTCGCAATATGAGTTGATATTTTTTTTACGAACAGAAATTGAA
* *
55679466 GAACAGAAATTGAAAAGACCTCAGCATATGAGCCGAGGCTCAACTCACCTATCGCAAT-TGAGTT
1 GAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
55679530 AATTTTTAACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA
66 AATTTTTAACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA
*
55679595 TATGAGTTGATTTTTGAAAAATAAAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAACTCAC
131 TATGAGTTGATTTTTGAAAAACAAAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAACTCAC
*
55679660 CTCTCGCAATATGAGTTGATTTTTTTTTTACGAACAGAAATTGAA
196 CTCTCGCAATATGAGTTGATATTTTTTTTACGAACAGAAATTGAA
55679705 GAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 GAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * ** *
55679770 GATTTTTGAA-AAATAGAAATTGAAAACACCTCAGCATGT---GAGGCTCAACTCACCTCTCGCA
66 AATTTTT-AACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
* * * * * * *
55679831 ATATAAGTTGATTTTTGAAAAACATAAATTGAGCAGAAATTGAAAATACCTCAACGGGTCTTGAG
130 ATATGAGTTGATTTTTGAAAAAC----A---A--A-AATTTAAAAATACATCAGCGTGTCCTGAG
*
55679896 GTTCAACTCACCTCTCGCAATATGAGTTG--A--TTTTTT-------G--A-T---
185 GCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTTTTACGAACAGAAATTGAA
* * * * *
55679935 G---ATAAATTGAAAATACCTCA--ATGTGA-CTTGAGGTTCAACTCACCTCTCACAATATGAGT
1 GAACAGAAATTGAAAAGACCTCAGCATGTGAGC-CGAGGCTCAACTCACCTCTCGCAATATGAGT
* * ** *
55679994 TGATTTTTTGAATTAAAACAGAAATTGAAAATAGAAATGGAAAACACCTCAGC--GTCTTGAGGT
65 T-AATTTTT-AA--CAAACAGAAATTG-AAAT-----T-------ACCTCAGCGTGTCCCGAGGC
* * * *
55680057 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAGAAATTA
113 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAAAAATT------TAA-AAA-T-
* * * * * *
55680122 AAAACAGAATTTGAAAGGAACTCGACGTGTGGCTCGAGACTCAACTCACCTCTCGCAATATGACT
167 ACATCAG----CG---TG---T---C------CT-GAGGCTCAACTCACCTCTCGCAATATGAGT
*
55680187 TG--A-TTATTTT--------AAA---AA
212 TGATATTTTTTTTACGAACAGAAATTGAA
* * **
55680202 G--CAAAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 GAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * * *
55680263 AATTTTTTTGATAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
66 AA--TTTTT-A-ACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTC
* * * *
55680328 GCAATATGAGTTGATTTTTGACAAACAAAAA-TTAAAATTACCTCAGC--GTCTTGAGGCTCAAC
127 GCAATATGAGTTGATTTTTGAAAAACAAAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAAC
* * * *
55680390 TCACTTCTCGCAATATGAGTTGAT-TTTTTTTGA--AACATAAATTAAAA
192 TCACCTCTCGCAATATGAGTTGATATTTTTTTTACGAACAGAAATT-GAA
* * * * *
55680437 AAACAAAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 GAACAGAAATTGAAAAGACCTCAGCATGTGAGC-CGAGGCTCAACTCACCTCTCGCAATATGAGT
* * **
55680499 TGATTTTTTTGAA-AAACATAAATTGAAAACACCAT-AGCGTGTGACCCGAGGCTCAACTCACCT
65 T-A-ATTTTT-AACAAACAGAAATTGAAATTACC-TCAGCGTGT--CCCGAGGCTCAACTCACCT
** * * * *
55680562 CTCGCAATATGAGTTGATTTTTTGATGAACAGAAA-TTAAAACTACCTCAACGTGTCCTGAGGCT
124 CTCGCAATATGAGTTGA-TTTTTGAAAAACAAAAATTTAAAAATACATCAGCGTGTCCTGAGGCT
*
55680626 CAACTCACCTTTCGCAATATGAGTTGAT-TTTTTT
188 CAACTCACCTCTCGCAATATGAGTTGATATTTTTT
55680660 GAAAATCAGA
Statistics
Matches: 988, Mismatches: 102, Indels: 206
0.76 0.08 0.16
Matches are distributed among these distances:
223 29 0.03
224 2 0.00
225 40 0.04
226 8 0.01
227 17 0.02
229 11 0.01
230 5 0.01
231 3 0.00
233 2 0.00
234 1 0.00
235 27 0.03
236 6 0.01
237 289 0.29
238 83 0.08
239 80 0.08
240 81 0.08
241 5 0.01
242 11 0.01
243 37 0.04
244 4 0.00
245 15 0.02
246 2 0.00
247 53 0.05
248 3 0.00
251 2 0.00
254 2 0.00
255 21 0.02
257 36 0.04
262 1 0.00
263 1 0.00
264 30 0.03
265 5 0.01
266 1 0.00
267 5 0.01
268 61 0.06
269 8 0.01
270 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (240 bp):
GAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
AATTTTTAACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTGAAAAACAAAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATATTTTTTTTACGAACAGAAATTGAA
Found at i:55679710 original size:14 final size:14
Alignment explanation
Indices: 55679691--55679718 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
55679681 TTTTTTTTAC
55679691 GAACAGAAATTGAA
1 GAACAGAAATTGAA
55679705 GAACAGAAATTGAA
1 GAACAGAAATTGAA
55679719 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:55679841 original size:70 final size:71
Alignment explanation
Indices: 55679700--55679862 Score: 238
Period size: 70 Copynumber: 2.3 Consensus size: 71
55679690 CGAACAGAAA
* *
55679700 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAACACCTCAGCATGT----CGAGGCTCAACTCACCTCTCGCAATAT
*
55679765 GAGTTGATTT
62 AAGTTGATTT
*
55679775 TTGAAAAATAGAAATTGAAAACACCTCAGCATGT-GAGGCTCAACTCACCTCTCGCAATATAAGT
1 TTGAAAAACAGAAATTGAAAACACCTCAGCATGTCGAGGCTCAACTCACCTCTCGCAATATAAGT
55679839 TGATTT
66 TGATTT
*
55679845 TTGAAAAACATAAATTGA
1 TTGAAAAACAGAAATTGA
55679863 GCAGAAATTG
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
70 51 0.62
75 31 0.38
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (71 bp):
TTGAAAAACAGAAATTGAAAACACCTCAGCATGTCGAGGCTCAACTCACCTCTCGCAATATAAGT
TGATTT
Found at i:55679988 original size:71 final size:71
Alignment explanation
Indices: 55679867--55680004 Score: 240
Period size: 71 Copynumber: 1.9 Consensus size: 71
55679857 AATTGAGCAG
* *
55679867 AAATTGAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGGGACTTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTT
55679932 GATGAT
66 GATGAT
* *
55679938 AAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGGGACTTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTT
55680003 GA
66 GA
55680005 ATTAAAACAG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGGGACTTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTT
GATGAT
Found at i:55680076 original size:159 final size:158
Alignment explanation
Indices: 55679540--55680089 Score: 582
Period size: 159 Copynumber: 3.4 Consensus size: 158
55679530 AATTTTTAAC
** **
55679540 AAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAACACCTCAGC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * * *
55679605 TTTTTGAAAAATAAAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
64 TTTTTGAAAAAT-AAAA-TTGAAAATACCTCA-AGTGACTTGAGGCTCAACTCACCTCTCGCAAT
** *
55679670 ATGAGTTGATTTTTTTTTTACGAACAGAAATTGA
126 ATGAGTTGATTTTTTGATTA-AAACAGAAATTGA
* *
55679704 AGAACAGAAATTGAAAAGACCTCAGCATGTGAGC-CGAGGCTCAACTCACCTCTCGCAATATGAG
1 A-AACAGAAATTGAAAACACCTCAGC--GT---CTTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
55679768 TTGATTTTTGAAAAATAGAAATTGAAAACACCTC-AG-CA-TGTGAGGCTCAACTCACCTCTCGC
60 TTGATTTTTGAAAAATA-AAATTGAAAATACCTCAAGTGACT-TGAGGCTCAACTCACCTCTCGC
* *
55679830 AATATAAGTTGA-TTTTTGA--AAAACATAAATTG-
123 AATATGAGTTGATTTTTTGATTAAAACAGAAATTGA
* * * *
55679862 -AGCAGAAATTGAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAACACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
** * *
55679926 TTTTTTG-ATGAT-AAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCACAATA
64 -TTTTTGAAAAATAAAATTGAAAATACCTCAA-GTGACTTGAGGCTCAACTCACCTCTCGCAATA
55679989 TGAGTTGATTTTTTGAATTAAAACAGAAATTGA
127 TGAGTTGATTTTTTG-ATTAAAACAGAAATTGA
* * * *
55680022 AAATAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 AAACAGAAATTGAAAACACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
55680087 TTT
66 TTT
55680090 TTGAAACACA
Statistics
Matches: 332, Mismatches: 34, Indels: 46
0.81 0.08 0.11
Matches are distributed among these distances:
152 15 0.05
153 2 0.01
154 36 0.11
155 38 0.11
156 28 0.08
157 2 0.01
158 6 0.02
159 60 0.18
160 2 0.01
161 17 0.05
162 5 0.02
163 33 0.10
164 2 0.01
165 25 0.08
166 11 0.03
167 49 0.15
168 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (158 bp):
AAACAGAAATTGAAAACACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTGAAAAATAAAATTGAAAATACCTCAAGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGATTAAAACAGAAATTGA
Found at i:55680126 original size:88 final size:87
Alignment explanation
Indices: 55679961--55680127 Score: 212
Period size: 88 Copynumber: 1.9 Consensus size: 87
55679951 CTCAATGTGA
* * *
55679961 CTTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAAT
1 CTTGAGGTTCAACTCACCTCTCACAATATGAGCTGATTTTTTGAA-TAAAACAGAAATTAAAAAA
*
55680026 AGAAATGGAAAACACCTCAGCGT
65 AGAAATGAAAAACACCTCAGCGT
* * *
55680049 CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-A-AACACATAAATTAAAAAA
1 CTTGAGGTTCAACTCACCTCTCACAATATGAGCTGA-TTTTTTGAATAAAACAGAAATT--AAAA
*
55680112 AAAGAAATTAAAAACA
63 AAAGAAATGAAAAACA
55680128 GAATTTGAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
86 10 0.15
88 51 0.75
89 7 0.10
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (87 bp):
CTTGAGGTTCAACTCACCTCTCACAATATGAGCTGATTTTTTGAATAAAACAGAAATTAAAAAAA
GAAATGAAAAACACCTCAGCGT
Found at i:55680246 original size:75 final size:73
Alignment explanation
Indices: 55680156--55680664 Score: 398
Period size: 77 Copynumber: 6.6 Consensus size: 73
55680146 ACGTGTGGCT
* * *
55680156 CGAGACTCAACTCACCTCTCGCAATATGACTTGATTATTTTAAAAAGCAAAAATTGAAAATACCT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAA-CAAAAATT-AAAATACCT
55680221 CAGCGTGTCC
64 CAGCGTGTCC
* *
55680231 CGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGATAAAA-ATAGAATTTGAAAATA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-A-AAAACA-A-AAATT-AAAATA
*
55680295 TCTCAGCGTGTCC
61 CCTCAGCGTGTCC
* * *
55680308 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTAAAATTACCTC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAAAAATTAAAA-TACCTC
*
55680372 AGC--GTCT
65 AGCGTGTCC
* * ** * * * **
55680379 TGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAAAACAAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAAAAATTAAAATACCTCA
***
55680444 AATTGAAAATACC
66 GCGTG----T-CC
* * * *
55680457 TCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAAT
1 -C-GAG-G-C-TCA-ACTC-----ACCTCTCGCAATATGAGTTGATTTTTTT-AAAAACAAAAAT
*
55680522 TGAAAACACCAT-AGCGTGTGACC
54 T-AAAATACC-TCAGCGTGT--CC
* ** *
55680545 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGAACAGAAATTAAAACTACCTC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAAAAATTAAAA-TACCTC
*
55680610 AACGTGTCC
65 AGCGTGTCC
* * *
55680619 TGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAA
55680665 TCAGAAATAA
Statistics
Matches: 350, Mismatches: 53, Indels: 63
0.75 0.11 0.14
Matches are distributed among these distances:
71 39 0.11
72 23 0.07
73 13 0.04
74 46 0.13
75 45 0.13
76 26 0.07
77 87 0.25
78 1 0.00
80 2 0.01
81 1 0.00
82 4 0.01
83 4 0.01
84 4 0.01
85 1 0.00
86 2 0.01
87 2 0.01
88 3 0.01
89 27 0.08
90 11 0.03
91 9 0.03
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAAAAATTAAAATACCTCA
GCGTGTCC
Found at i:55680447 original size:87 final size:88
Alignment explanation
Indices: 55680350--55680527 Score: 281
Period size: 89 Copynumber: 2.0 Consensus size: 88
55680340 GATTTTTGAC
*
55680350 AAACAAAAATT-AAAATTACCTCAGC-GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
1 AAACAAAAATTGAAAA-TACCTCAGCGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
55680413 TTTTTTTTG-AAACATAAATTAAAA
65 -TTTTTTTGAAAACATAAATTAAAA
55680437 AAACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAAAAATTGAAAATACCTCAGCG-GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
55680502 TTTTTTTGAAAAACATAAATTGAAA
65 TTTTTTTG-AAAACATAAATTAAAA
55680527 A
1 A
55680528 CACCATAGCG
Statistics
Matches: 84, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
87 20 0.24
88 12 0.14
89 37 0.44
90 15 0.18
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (88 bp):
AAACAAAAATTGAAAATACCTCAGCGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGAAAACATAAATTAAAA
Found at i:55680477 original size:160 final size:163
Alignment explanation
Indices: 55680286--55680602 Score: 448
Period size: 160 Copynumber: 1.9 Consensus size: 163
55680276 AAAATAGAAT
* *
55680286 TTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAC
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
* ** *
55680350 AAACAAAAATT-AAAATTACC-TCAGC-GT-CTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
66 AAACAAAAATTGAAAA-CACCAT-AGCGGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
55680411 GATTTTTT-TTGAAACATAAATTAAAAAAACAAAAA
129 GATTTTTTGATG-AACAGAAATTAAAAAAACAAAAA
*
55680446 TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA
*
55680511 AAAACATAAATTGAAAACACCATAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
65 AAAACAAAAATTGAAAACACCATAGCG-GT-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
55680576 TGATTTTTTGATGAACAGAAATTAAAA
128 TGATTTTTTGATGAACAGAAATTAAAA
55680603 CTACCTCAAC
Statistics
Matches: 138, Mismatches: 10, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
160 54 0.39
162 23 0.17
163 5 0.04
164 2 0.01
166 52 0.38
167 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (163 bp):
TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
AAACAAAAATTGAAAACACCATAGCGGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTGATGAACAGAAATTAAAAAAACAAAAA
Found at i:55680641 original size:74 final size:75
Alignment explanation
Indices: 55680435--55680664 Score: 315
Period size: 75 Copynumber: 3.1 Consensus size: 75
55680425 CATAAATTAA
*
55680435 AAAAACAAAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAAAAATTGAAAACTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
55680499 TGATTTTTTTG
66 TGA-TTTTTTG
* *
55680510 AAAAACATAAATTGAAAAC-ACCAT-AGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAAAAATTGAAAACTACC-TCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATG
55680573 AGTTGATTTTTTG
63 AGTTGATTTTTTG
** * * *
55680586 ATGAACAGAAATT-AAAACTACCTCAACGTGTCCTGAGGCTCAACTCACCTTTCGCAATATGAGT
1 AAAAACAAAAATTGAAAACTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
55680650 TGATTTTTTTG
66 TGA-TTTTTTG
55680661 AAAA
1 AAAA
55680665 TCAGAAATAA
Statistics
Matches: 137, Mismatches: 11, Indels: 14
0.85 0.07 0.09
Matches are distributed among these distances:
74 34 0.25
75 42 0.31
76 27 0.20
77 34 0.25
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (75 bp):
AAAAACAAAAATTGAAAACTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTG
Found at i:55682465 original size:25 final size:25
Alignment explanation
Indices: 55682417--55682503 Score: 85
Period size: 25 Copynumber: 3.7 Consensus size: 25
55682407 ACATGTTATC
*
55682417 TTATGTATATA-TCTT-A-ACTATA
1 TTATGTATATATTTTTAACACTATA
*
55682439 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAACACTATA
* *
55682464 TTATGTACATATTTTTAATA-T-TA
1 TTATGTATATATTTTTAACACTATA
* *
55682487 TCATGTATTTATTTTTA
1 TTATGTATATATTTTTA
55682504 TATATGTACA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 10 0.19
23 19 0.35
24 2 0.04
25 23 0.43
ACGTcount: A:0.32, C:0.07, G:0.06, T:0.55
Consensus pattern (25 bp):
TTATGTATATATTTTTAACACTATA
Found at i:55682499 original size:23 final size:24
Alignment explanation
Indices: 55682419--55682508 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
55682409 ATGTTATCTT
*
55682419 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
55682441 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
55682466 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
*
55682489 ATGTATTTATTTTT-ATATAT
1 ATGTATATATTTTTAATATAT
55682509 GTACATATTG
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
22 13 0.24
23 24 0.44
24 2 0.04
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:55682652 original size:31 final size:31
Alignment explanation
Indices: 55682617--55682686 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 31
55682607 TTTGTCAATA
55682617 TTAATTATTATTAT-TCTAATATTTTGATAT-T
1 TTAATTATT-TTATATCTAATATTTT-ATATAT
* *
55682648 TTAA-TATTTTATATTTTATATTTTATATAT
1 TTAATTATTTTATATCTAATATTTTATATAT
*
55682678 TTTATTATT
1 TTAATTATT
55682687 CCCATCATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 8 0.24
30 17 0.52
31 8 0.24
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (31 bp):
TTAATTATTTTATATCTAATATTTTATATAT
Found at i:55682661 original size:23 final size:23
Alignment explanation
Indices: 55682635--55682682 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
55682625 TATTATTCTA
55682635 ATATTTTGATATTTTA-ATATTTT
1 ATATTTT-ATATTTTATATATTTT
55682658 ATATTTTATATTTTATATATTTT
1 ATATTTTATATTTTATATATTTT
55682681 AT
1 AT
55682683 TATTCCCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
ATATTTTATATTTTATATATTTT
Found at i:55682663 original size:7 final size:7
Alignment explanation
Indices: 55682635--55682675 Score: 64
Period size: 7 Copynumber: 5.6 Consensus size: 7
55682625 TATTATTCTA
55682635 ATATTTT
1 ATATTTT
55682642 GATATTTT
1 -ATATTTT
55682650 AATATTTT
1 -ATATTTT
55682658 ATATTTT
1 ATATTTT
55682665 ATATTTT
1 ATATTTT
55682672 ATAT
1 ATAT
55682676 ATTTTATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 18 0.56
8 14 0.44
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (7 bp):
ATATTTT
Found at i:55682670 original size:14 final size:15
Alignment explanation
Indices: 55682628--55682675 Score: 71
Period size: 16 Copynumber: 3.2 Consensus size: 15
55682618 TAATTATTAT
*
55682628 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
55682644 TATTTTAATATTTTA
1 TATTTTAATATTTTA
55682659 TATTTT-ATATTTTA
1 TATTTTAATATTTTA
55682673 TAT
1 TAT
55682676 ATTTTATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 11 0.35
15 7 0.23
16 13 0.42
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:55682676 original size:16 final size:16
Alignment explanation
Indices: 55682635--55682686 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
55682625 TATTATTCTA
55682635 ATATTTTGATATTTTA-
1 ATATTTT-ATATTTTAT
55682651 ATATTTTATATTTTAT
1 ATATTTTATATTTTAT
55682667 AT-TTTATATATTTTAT
1 ATATTT-TATATTTTAT
55682683 -TATT
1 ATATT
55682687 CCCATCATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
ATATTTTATATTTTAT
Found at i:55684968 original size:30 final size:29
Alignment explanation
Indices: 55684923--55684983 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
55684913 AAGGAAATAA
*
55684923 ATCCTAATCCCTAAGAATCAGTAATTGAT
1 ATCCTAATCCCTAAGAATCAGTAACTGAT
*
55684952 ATCCTAATTTCCTAAGAATCAGTAACTGAT
1 ATCCTAA-TCCCTAAGAATCAGTAACTGAT
55684982 AT
1 AT
55684984 TAGTTTCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (29 bp):
ATCCTAATCCCTAAGAATCAGTAACTGAT
Found at i:55686557 original size:193 final size:194
Alignment explanation
Indices: 55686175--55686561 Score: 514
Period size: 195 Copynumber: 2.0 Consensus size: 194
55686165 TAAAAGGTTA
55686175 AATAATATTCTCAAGATCTATCTGATTATTAGTCTCTAAGATTAAGCGATAGGTACCAATAACTA
1 AATAATATTCTCAAGATCTATCTGATTATTAGTCTCTAAGATTAAGCGATAGGTACCAATAACTA
*
55686240 TCACGTCCACTTTGAGATGGTTCCTATATAGATGAATTTCTCACTTTCTTTCAGTGCCCTGCTTG
66 TCACGTCCACTTTGAGATGGTTCCTATATAGATGAA-TCCTCACTTTCTTTCAGTGCCCTGCTTG
*
55686305 CAAGGAATCCTTACGTTAAATTAGTAATATGAGTAGTGACACCAAAATCAATCCACCAAGTATTT
130 CAAGGAATCCTTACATTAAATTAGTAATATGAGTAGTGACACCAAAATCAATCCACCAAGTATTT
* * * *
55686370 AATAATATTCTCAAGAGTC-ATTTGATTATTAGTCTCTAAGATTAAGCGTTAGGTTCCAATAGCT
1 AATAATATTCTCAAGA-TCTATCTGATTATTAGTCTCTAAGATTAAGCGATAGGTACCAATAACT
* * * * ** * *
55686434 ATTACTTCCGCTTTGAGATGGTTCCTCATGTAGATG-A-CCTCACTTTCTTTC-GATTTCTTGGT
65 ATCACGTCCACTTTGAGATGGTTCCT-ATATAGATGAATCCTCACTTTCTTTCAG-TGCCCTGCT
* ** * * *
55686496 TGTAAGGAATCCTTACATTGGATTAGTAATGTGAGTAGT-AGCTCCAGAATCAATCCACCAAGTA
128 TGCAAGGAATCCTTACATTAAATTAGTAATATGAGTAGTGA-CACCAAAATCAATCCACCAAGTA
55686560 TT
192 TT
55686562 AGAAAGATCT
Statistics
Matches: 168, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
192 2 0.01
193 75 0.45
195 81 0.48
196 10 0.06
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (194 bp):
AATAATATTCTCAAGATCTATCTGATTATTAGTCTCTAAGATTAAGCGATAGGTACCAATAACTA
TCACGTCCACTTTGAGATGGTTCCTATATAGATGAATCCTCACTTTCTTTCAGTGCCCTGCTTGC
AAGGAATCCTTACATTAAATTAGTAATATGAGTAGTGACACCAAAATCAATCCACCAAGTATTT
Found at i:55700382 original size:29 final size:29
Alignment explanation
Indices: 55700349--55700407 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
55700339 AATACCAAAG
*
55700349 ATATATAAAATTCTGCATTTGAAGATGTA
1 ATATATAAAATTCAGCATTTGAAGATGTA
55700378 ATATATAAAATTCAGCATTTGAAGATGTA
1 ATATATAAAATTCAGCATTTGAAGATGTA
55700407 A
1 A
55700408 AAATTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.36
Consensus pattern (29 bp):
ATATATAAAATTCAGCATTTGAAGATGTA
Found at i:55704411 original size:1 final size:1
Alignment explanation
Indices: 55704405--55704436 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
55704395 TGGAGTGTAC
*
55704405 AAAAAAAAAAAAAAAAAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
55704437 CAAACAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:55704437 original size:7 final size:7
Alignment explanation
Indices: 55704403--55704440 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
55704393 AATGGAGTGT
55704403 ACAAAAA
1 ACAAAAA
55704410 A-AAAAA
1 ACAAAAA
55704416 A-AAAAA
1 ACAAAAA
*
55704422 AAAAAAA
1 ACAAAAA
55704429 ACAAAAA
1 ACAAAAA
55704436 ACAAA
1 ACAAA
55704441 CAAAGAGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 12 0.41
7 17 0.59
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (7 bp):
ACAAAAA
Found at i:55709361 original size:13 final size:13
Alignment explanation
Indices: 55709343--55709371 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
55709333 AAACAATGGA
55709343 TTTATTTTTATTT
1 TTTATTTTTATTT
55709356 TTTATTTTTATTT
1 TTTATTTTTATTT
55709369 TTT
1 TTT
55709372 CAGAGCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:55716183 original size:24 final size:22
Alignment explanation
Indices: 55716156--55716216 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
55716146 CTCTTCAAAG
55716156 AATAATAAAACATAAATAAATAAT
1 AATAATAAAACATAAA-AAA-AAT
*
55716180 AATAATAAAA-ATTAAAAAAAT
1 AATAATAAAACATAAAAAAAAT
* *
55716201 TATAAAAAAACATAAA
1 AATAATAAAACATAAA
55716217 GTATGTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 11 0.34
22 7 0.22
23 4 0.12
24 10 0.31
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (22 bp):
AATAATAAAACATAAAAAAAAT
Found at i:55716456 original size:15 final size:14
Alignment explanation
Indices: 55716438--55716471 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
55716428 GAATAGAAAT
55716438 ATAATAATACTAATA
1 ATAATAATACTAA-A
55716453 ATAATAATACTAAA
1 ATAATAATACTAAA
55716467 ATAAT
1 ATAAT
55716472 GCTATAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAATACTAAA
Found at i:55718375 original size:44 final size:44
Alignment explanation
Indices: 55718347--55718727 Score: 291
Period size: 44 Copynumber: 8.7 Consensus size: 44
55718337 CCTTTATTTT
* * * *
55718347 AATCCGCTCCACTGTAATCACAGGGAGATAGGATTACTATCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
*
55718391 AATCTGCTCTGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
**
55718435 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-TACTATCTTC
* * * * *
55718479 GATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGA-AATTCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTC
* * * * * *
55718525 GATCTACTCCACTGTAACCTCAGGGAGATAAGA--CCTGA--TGC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACT-ATCTTC
* * * * * *
55718566 GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTT
1 AATCTGCTCCGCTGTAATC-TCAGGGAGATAAGAT--TACTATCTTC
* * * *
55718610 AATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA-TAGTATCTTC
1 AATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATTACTATCTTC
* **
55718653 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-TACTATCTTC
* *
55718697 AATCTGCTCCACTGTAACCTCAGGGAGATAA
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAA
55718728 AATCTAAAAT
Statistics
Matches: 275, Mismatches: 45, Indels: 34
0.78 0.13 0.10
Matches are distributed among these distances:
40 1 0.00
41 31 0.11
42 3 0.01
43 30 0.11
44 173 0.63
45 2 0.01
46 35 0.13
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
Found at i:55718419 original size:88 final size:87
Alignment explanation
Indices: 55718280--55718727 Score: 357
Period size: 88 Copynumber: 5.1 Consensus size: 87
55718270 CAACTGCAAC
* * * * *
55718280 CTCAGGGAGATAAGA-CCT-GCTGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCT-TT
1 CTCAGGGAGATAAGATACTATCTTCGATCTGCTCTGCTGTAAC-TCAGGGAGATAAGATCCTATT
55718342 ATTTTAATCCGCTCCACTGTAAT
65 ATTTTAATCCGCTCCACTGTAAT
* * * *
55718365 CACAGGGAGATAGGATTACTATCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGAT--TAC
1 CTCAGGGAGATAAGA-TACTATCTTCGATCTGCTCTGCTGTAA-CTCAGGGAGATAAGATCCTAT
* * *
55718428 TATCTTCAATCTGCTCCGCTGTAAT
64 TAT-TTTAATCCGCTCCACTGTAAT
* ** *
55718453 CTCAGGGAGATAAGAT-CTCTGGCTTCGATCTGCTCCACTGTAACCTCAAGGAGATAAGAT-CTG
1 CTCAGGGAGATAAGATACTAT--CTTCGATCTGCTCTGCTGTAA-CTCAGGGAGATAAGATCCT-
* * ** *
55718516 A-AATTCTTCGATCTACTCCACTGTAAC
62 ATTATT-TT-AATCCGCTCCACTGTAAT
* * * *
55718543 CTCAGGGAGATAAGA-CCTGA--TGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCT-T
1 CTCAGGGAGATAAGATACT-ATCTTCGATCTGCTCTGCTGTAAC-TCAGGGAGATAAGATCCTAT
55718604 TATTTTAATCCGCTCCACTGTAA-
64 TATTTTAATCCGCTCCACTGTAAT
* * * *
55718627 CTTCAGGGAGATAGGATAGTATCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTCT
1 C-TCAGGGAGATAAGATACTATCTTCGATCTGCTCTGCTGTAA-CTCAGGGAGATAAGATCCTAT
*** * * *
55718691 GGCTTCAATCTGCTCCACTGTAAC
64 TATTTTAATCCGCTCCACTGTAAT
55718715 CTCAGGGAGATAA
1 CTCAGGGAGATAA
55718728 AATCTAAAAT
Statistics
Matches: 289, Mismatches: 50, Indels: 46
0.75 0.13 0.12
Matches are distributed among these distances:
84 1 0.00
85 41 0.14
86 10 0.03
87 99 0.34
88 101 0.35
89 5 0.02
90 32 0.11
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (87 bp):
CTCAGGGAGATAAGATACTATCTTCGATCTGCTCTGCTGTAACTCAGGGAGATAAGATCCTATTA
TTTTAATCCGCTCCACTGTAAT
Found at i:55718539 original size:46 final size:46
Alignment explanation
Indices: 55718475--55718562 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
55718465 AGATCTCTGG
* *
55718475 CTTCGATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGAAATT
1 CTTCGATCTACTCCACTGTAACCTCAAGGAGATAAGACCTGAAATT
*
55718521 CTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGA
1 CTTCGATCTACTCCACTGTAACCTCAAGGAGATAAGACCTGA
55718563 TGCGATCTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (46 bp):
CTTCGATCTACTCCACTGTAACCTCAAGGAGATAAGACCTGAAATT
Found at i:55720008 original size:7 final size:7
Alignment explanation
Indices: 55719996--55720039 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
55719986 TTAGCCTCTC
55719996 CATTTTT
1 CATTTTT
55720003 CA-TTTT
1 CATTTTT
55720009 CATTTTT
1 CATTTTT
55720016 CATTTTT
1 CATTTTT
*
55720023 CA-TTCT
1 CATTTTT
55720029 CATTTTT
1 CATTTTT
55720036 CATT
1 CATT
55720040 CATTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 11 0.33
7 22 0.67
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (7 bp):
CATTTTT
Found at i:55720014 original size:13 final size:13
Alignment explanation
Indices: 55719999--55720039 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
55719989 GCCTCTCCAT
55719999 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
55720011 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
*
55720025 TTCTCATTTTTCA
1 TTTTCATTTTTCA
55720038 TT
1 TT
55720040 CATTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:55720019 original size:20 final size:20
Alignment explanation
Indices: 55719996--55720039 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
55719986 TTAGCCTCTC
*
55719996 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTCTCATTTTT
55720016 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTTT
55720036 CATT
1 CATT
55720040 CATTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:55720044 original size:11 final size:12
Alignment explanation
Indices: 55720000--55720046 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
55719990 CCTCTCCATT
55720000 TTTCA-TTTTCA
1 TTTCATTTTTCA
55720011 TTTTTCATTTTTCA
1 --TTTCATTTTTCA
55720025 TTCTCATTTTTCA
1 TT-TCATTTTTCA
55720038 -TTCATTTTT
1 TTTCATTTTT
55720047 TTTACTCAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 8 0.25
12 3 0.09
13 15 0.47
14 6 0.19
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTCATTTTTCA
Found at i:55720976 original size:19 final size:21
Alignment explanation
Indices: 55720934--55720982 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
55720924 TTCATTCTAA
55720934 TTTTTTCA-TCTATATTTCTC
1 TTTTTTCATTCTATATTTCTC
*
55720954 TTTTTTCATTCT-TCTTTCT-
1 TTTTTTCATTCTATATTTCTC
*
55720973 TTTTCTCATT
1 TTTTTTCATT
55720983 TTCATTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 9 0.35
20 14 0.54
21 3 0.12
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTTCATTCTATATTTCTC
Found at i:55721052 original size:21 final size:21
Alignment explanation
Indices: 55721028--55721072 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
55721018 TTCTTTCTTC
* *
55721028 TTTTTG-TTTTTTTATTTTGA
1 TTTTTGATTTTTTCATTTTCA
55721048 TTTTTGATTTTTTCATTTTCA
1 TTTTTGATTTTTTCATTTTCA
55721069 TTTT
1 TTTT
55721073 GACTTTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTTTGATTTTTTCATTTTCA
Found at i:55729269 original size:189 final size:190
Alignment explanation
Indices: 55728933--55729314 Score: 509
Period size: 189 Copynumber: 2.0 Consensus size: 190
55728923 TTTTAAATGA
* * * *
55728933 TCTCGGAAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCCCTTTTTTTTTAATCCGA
1 TCTCGGAAATTAACAAAAGATCGTGTCCTAACTTACGAGGCATGATCCC--TTTTTCTAAACCGA
*
55728998 GATAGCTAAATATCTTTTAAATAAGTAAATTTTTGGCATCCATTTCGCGTATCGAGAATTCAAGA
64 GATAACTAAATATCTTTTAAATAAGTAAATTTTTGGCATCCATTTCGCGTATCGAGAATTCAAGA
* * *
55729063 CATTGTATCCTAACTTACTGGATATAATTCTCTTTCTCGATTAACATAAAATATGCCC-TTT
129 CATTGTATCCTAACTTACGGGATATAATTCTCTTTCCCGATTAACATAAAACATGCCCATTT
* * *
55729124 TCTCGGGAATTAACAAAAGATCGTGTTCTAACTTACGGGGCATGATCCC-TTTTCTAAACCTGAG
1 TCTCGGAAATTAACAAAAGATCGTGTCCTAACTTACGAGGCATGATCCCTTTTTCTAAACC-GAG
* * ** ** *
55729188 ATAATTAAATATCTTTTTAAATAAGTAAGTTTTTGGTGTTTA-TTCGCGTATCGGGAATTCAAGA
65 ATAACTAAATATC-TTTTAAATAAGTAAATTTTTGGCATCCATTTCGCGTATCGAGAATTCAAGA
* * * *
55729252 CATTGTGTCCTAACTTACGGGATATAATTTTCTTTCCCGATTAACGTGAAACATGCCCATTT
129 CATTGTATCCTAACTTACGGGATATAATTCTCTTTCCCGATTAACATAAAACATGCCCATTT
55729314 T
1 T
55729315 TCTCAAAAAA
Statistics
Matches: 166, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
188 9 0.05
189 86 0.52
190 27 0.16
191 44 0.27
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (190 bp):
TCTCGGAAATTAACAAAAGATCGTGTCCTAACTTACGAGGCATGATCCCTTTTTCTAAACCGAGA
TAACTAAATATCTTTTAAATAAGTAAATTTTTGGCATCCATTTCGCGTATCGAGAATTCAAGACA
TTGTATCCTAACTTACGGGATATAATTCTCTTTCCCGATTAACATAAAACATGCCCATTT
Found at i:55731828 original size:25 final size:25
Alignment explanation
Indices: 55731800--55731858 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
55731790 TAAAATCCTC
*
55731800 CGAGTTGAATAACAGTAAGCTCATA
1 CGAGCTGAATAACAGTAAGCTCATA
* * *
55731825 CGAGCTGAGTATCGGTAAGCTCATA
1 CGAGCTGAATAACAGTAAGCTCATA
*
55731850 AGAGCTGAA
1 CGAGCTGAA
55731859 GTCGGTAACC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (25 bp):
CGAGCTGAATAACAGTAAGCTCATA
Found at i:55733534 original size:6 final size:6
Alignment explanation
Indices: 55733492--55733574 Score: 69
Period size: 6 Copynumber: 13.8 Consensus size: 6
55733482 ATAGGATATT
* * * *
55733492 TATCTG TAT-TCG TATCTG TTTCTG CATCTG CATCTG TATCTG TAACTG
1 TATCTG TATCT-G TATCTG TATCTG TATCTG TATCTG TATCTG TATCTG
* * * * *
55733540 TATATG TATTTA TATCTA TAACTG TATCTG TATCT
1 TATCTG TATCTG TATCTG TATCTG TATCTG TATCT
55733575 AAAATTTTCT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
5 1 0.02
6 60 0.97
7 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (6 bp):
TATCTG
Found at i:55750924 original size:24 final size:23
Alignment explanation
Indices: 55750880--55750924 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
55750870 GTTTTATGGC
*
55750880 TTTTAGGGTTTAGGGTGCAGGCT
1 TTTTAGGGTTTAGGGTCCAGGCT
55750903 TTTTAGGAG-TTAGGGGTCCAGG
1 TTTTAGG-GTTTA-GGGTCCAGG
55750925 AAATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.16, C:0.09, G:0.40, T:0.36
Consensus pattern (23 bp):
TTTTAGGGTTTAGGGTCCAGGCT
Found at i:55751201 original size:125 final size:125
Alignment explanation
Indices: 55750993--55751222 Score: 347
Period size: 125 Copynumber: 1.8 Consensus size: 125
55750983 ATGCTATTTA
* * *
55750993 AGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATTTCGCTACATCGGTCATGTGAGAAATAA
1 AGAAGAAATTGTAAAATAGCGCCCTCGTGGACGCGATTTCGCTACATCGGTCATGTGAGAAATAA
*
55751058 TTTTGTTTTGACGTTTTCTGAGGAAATAGTATAAAATCGCTGATACCAGGATACTATATG
66 TTTTGTTTTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATACTATATG
* *
55751118 AGAAGAAATTGTAAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGT-AGGAAAT
1 AGAAGAAATTGTAAAATAGCGCCCTCGTGGACGCGATTTCGCTACA-TCGGTCATGTGA-GAAAT
* * *
55751182 AATTTTTTTTTGACG-TTTCTGAGCAAATAGTGTCAAATCGC
64 AATTTTGTTTTGACGTTTTCTGAGCAAATAGTATAAAATCGC
55751223 GCCCTCGTGG
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
125 66 0.70
126 28 0.30
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (125 bp):
AGAAGAAATTGTAAAATAGCGCCCTCGTGGACGCGATTTCGCTACATCGGTCATGTGAGAAATAA
TTTTGTTTTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATACTATATG
Found at i:55754430 original size:29 final size:27
Alignment explanation
Indices: 55754397--55755779 Score: 948
Period size: 29 Copynumber: 52.1 Consensus size: 27
55754387 AATTAGGGTT
55754397 TTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAGTA-GG-TTAGGGTTTTTAA
55754426 TTTAATTAA--A--TTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55754449 -TTAAGT-AG--GGTTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55754472 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
*
55754501 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
* *
55754530 TTTAATTAGGTTAGGTTAGGGTTAGGGTT--
1 TTTAATTAAG-TAGGTTAGGGTT---TTTAA
55754559 TTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAGTA-GG-TTAGGGTTTTTAA
*
55754588 TTTAATTAA--A--TTAGAGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55754611 -TTAAGT-AG--GGTTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55754634 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
* *****
55754663 TTTAATTAGGTTAGGTTAGGGTTAGGGT
1 TTTAATTAAG-TAGGTTAGGGTTTTTAA
55754691 TTTAATT-AGTAGGGTTAGGGTTTTTAA
1 TTTAATTAAGTA-GGTTAGGGTTTTTAA
55754718 TTTAATTAA--A--TTAGGGTTTTT-A
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
55754740 ---A-TTAAGTAGGTTAGGG-TTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55754762 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
* *
55754791 TTTAATTAGGTTAGGTTAGGGTTAGGGTT--
1 TTTAATTAAG-TAGGTTAGGGTT---TTTAA
55754820 TTTAATTAAGTAGGGTTTAGGG-TTTTAA
1 TTTAATTAAGTA-GG-TTAGGGTTTTTAA
*
55754848 TTTAATTAA--A--TTAGGTTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55754871 -TTAAGT-AG--GGTTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55754894 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
* *
55754923 TTTAATTAGGTTAGGTTAGGGTTAAGGTT--
1 TTTAATTAAG-TAGGTTAGGGTT---TTTAA
55754952 TTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAGTA-GG-TTAGGGTTTTTAA
55754981 TTTAATTAA--A--TTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
* *
55755004 -TTAAGT-AG--GGTTAGGATTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55755027 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
* *
55755056 TTTAATTAGGTTAGGTTAGGGTTAGGGTT--
1 TTTAATTAAG-TAGGTTAGGGTT---TTTAA
55755085 TTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAGTA-GG-TTAGGGTTTTTAA
55755114 TTTAATTAA--A--TTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55755137 -TTAAGT-AG--GGTTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55755160 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
* *
55755189 TTTAATTAGGTTAGGTTAGGGTTAGGGTT--
1 TTTAATTAAG-TAGGTTAGGGTT---TTTAA
55755218 TTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAGTA-GG-TTAGGGTTTTTAA
55755247 TTTAATTAA--A--TTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55755270 -TTAAGT-AG--GGTTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55755293 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
* *
55755322 TTTAATTAAATTAGGTTAGGGTTAGGGTT--
1 TTTAATT-AAGTAGGTTAGGGTT---TTTAA
55755351 TTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAGTA-GG-TTAGGGTTTTTAA
55755380 TTTAATTAA--A--TTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55755403 -TTAAGT-AG--GGTTA-GGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55755425 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
*
55755454 TTTAATTAAATTAGGTTAGGGTTATGGTT--
1 TTTAATT-AAGTAGGTTAGGGTT-T--TTAA
55755483 TTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAGTA-GG-TTAGGGTTTTTAA
55755512 TTTAATTAA--A--TTAGGG-TTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55755534 -TTAAAT-AG--GGTTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
*
55755557 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAGT-AGGTTAGGGTTTTTAA
*
55755586 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATT-AAGTAGGTTAGGGTTTTTAA
* *
55755614 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAG-TAGGTTAGGGTTTTTAA
* *
55755642 TTTAATAAAATAAGGTTA-GGTTTTTAA
1 TTTAATTAAGT-AGGTTAGGGTTTTTAA
* *
55755669 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAG-TAGGTTAGGGTTTTTAA
* *
55755697 TTTAATTAAATTAGGTTAGGGTTAGGGTT--
1 TTTAATT-AAGTAGGTTAGGGTT---TTTAA
55755726 TTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAGTA-GG-TTAGGGTTTTTAA
55755755 TTTAATTAA--A--TTAGGGTTTTTAA
1 TTTAATTAAGTAGGTTAGGGTTTTTAA
55755778 TT
1 TT
55755780 AAGCAGGGTT
Statistics
Matches: 1105, Mismatches: 93, Indels: 318
0.73 0.06 0.21
Matches are distributed among these distances:
18 4 0.00
19 1 0.00
20 2 0.00
21 16 0.01
22 69 0.06
23 204 0.18
24 35 0.03
25 2 0.00
26 15 0.01
27 66 0.06
28 226 0.20
29 387 0.35
30 62 0.06
31 16 0.01
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.47
Consensus pattern (27 bp):
TTTAATTAAGTAGGTTAGGGTTTTTAA
Found at i:55754459 original size:17 final size:18
Alignment explanation
Indices: 55754426--55754460 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
55754416 GGGTTTTTAA
*
55754426 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
55754444 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
55754461 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Done.