Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 194 of 222
Found at i:61987670 original size:13 final size:14
Alignment explanation
Indices: 61987652--61987680 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
61987642 TCAATAATTA
61987652 AAAATAAAAT-ACC
1 AAAATAAAATAACC
61987665 AAAATAAAATAACC
1 AAAATAAAATAACC
61987679 AA
1 AA
61987681 GAAATCCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAATAAAATAACC
Found at i:61989214 original size:15 final size:14
Alignment explanation
Indices: 61989194--61989232 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 14
61989184 TTTTATTTAA
61989194 TTATGTTAAATATT
1 TTATGTTAAATATT
61989208 TTCATGTTATAAATATT
1 TT-ATG-T-TAAATATT
61989225 TTATGTTA
1 TTATGTTA
61989233 TAAATAGGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.18
15 4 0.18
16 4 0.18
17 10 0.45
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TTATGTTAAATATT
Found at i:61989232 original size:16 final size:17
Alignment explanation
Indices: 61989200--61989238 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
61989190 TTAATTATGT
61989200 TAAATATTTTCATGTTA
1 TAAATATTTTCATGTTA
61989217 TAAATATTTT-ATGTTA
1 TAAATATTTTCATGTTA
61989233 TAAATA
1 TAAATA
61989239 GGCGAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (17 bp):
TAAATATTTTCATGTTA
Found at i:61996021 original size:21 final size:21
Alignment explanation
Indices: 61995995--61996049 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
61995985 ACAGCGGTGG
61995995 CAGTGAGATTA-ATTACTGTAA
1 CAGTGAGATTAGA-TACTGTAA
* *
61996016 CGGTGAGATTAGATACTGTAG
1 CAGTGAGATTAGATACTGTAA
61996037 CAGTGAGATTAGA
1 CAGTGAGATTAGA
61996050 AATAGTGGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (21 bp):
CAGTGAGATTAGATACTGTAA
Found at i:61997015 original size:16 final size:16
Alignment explanation
Indices: 61996994--61997025 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
61996984 TTGAAAATGG
61996994 TTGAAAAGTCCACAAA
1 TTGAAAAGTCCACAAA
61997010 TTGAAAAGTCCACAAA
1 TTGAAAAGTCCACAAA
61997026 AGTCCACTAC
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:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (16 bp):
TTGAAAAGTCCACAAA
Found at i:61998934 original size:18 final size:18
Alignment explanation
Indices: 61998910--61998952 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
61998900 TTCGTTTCCA
61998910 AAACATTATTC-ATTTAC
1 AAACATTATTCAATTTAC
*
61998927 AAATCATTATTCAATTTCC
1 AAA-CATTATTCAATTTAC
61998946 AAACATT
1 AAACATT
61998953 TTTTTATTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
19 8 0.35
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (18 bp):
AAACATTATTCAATTTAC
Found at i:62005913 original size:17 final size:17
Alignment explanation
Indices: 62005891--62005932 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
62005881 CGCCTATGTA
62005891 GGCCCACACGCCCGTGT
1 GGCCCACACGCCCGTGT
62005908 GGCCCACACGCCCGTGT
1 GGCCCACACGCCCGTGT
62005925 GGCCCACA
1 GGCCCACA
62005933 TAGCTGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.14, C:0.48, G:0.29, T:0.10
Consensus pattern (17 bp):
GGCCCACACGCCCGTGT
Found at i:62015239 original size:51 final size:51
Alignment explanation
Indices: 62015159--62015347 Score: 213
Period size: 51 Copynumber: 3.7 Consensus size: 51
62015149 CATGAGAACT
* * * * **
62015159 CATGTGTAGTACTATGTGTAGGCTCCTATGAGTATAAGATAGTTATGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTATGGTCA
62015210 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTT-TGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-TTATGGTCA
* * * *
62015261 -AGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GGTATTGGTCA
1 CA-TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTA-TGGTCA
* * *
62015312 CGTGTGTAGTACTAAGTGTAGGCTACTATATGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
62015348 GAATAGCATT
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
51 113 0.96
52 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (51 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTATGGTCA
Found at i:62017740 original size:39 final size:39
Alignment explanation
Indices: 62017696--62017838 Score: 223
Period size: 39 Copynumber: 3.7 Consensus size: 39
62017686 CATATTCACT
*
62017696 TTTAAGCATATATCACATTACACATATAATCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACATAACA
* * *
62017735 TTTAAGCAAATATCACAATACTCATATAATCACATAAAA
1 TTTAAGCATATATCACAATACACATATAATCACATAACA
*
62017774 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACATAACA
* *
62017813 TTCAAGTATATATCACAATACACATA
1 TTTAAGCATATATCACAATACACATA
62017839 ACATGTTTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.48, C:0.20, G:0.03, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACACATATAATCACATAACA
Found at i:62034573 original size:28 final size:30
Alignment explanation
Indices: 62034534--62034590 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
62034524 ATATGAATGG
62034534 AAAGTGGAACTTTAATGCAA-T-ACAGTGA
1 AAAGTGGAACTTTAATGCAACTGACAGTGA
* *
62034562 AAAGTGGCACTTTGATGCAACTGACAGTG
1 AAAGTGGAACTTTAATGCAACTGACAGTG
62034591 GCACTATGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.72
29 1 0.04
30 6 0.24
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (30 bp):
AAAGTGGAACTTTAATGCAACTGACAGTGA
Found at i:62037668 original size:3 final size:3
Alignment explanation
Indices: 62037655--62037695 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
62037645 CATTTAATTG
*
62037655 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
62037696 AAAACTAGAT
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:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:62041330 original size:22 final size:22
Alignment explanation
Indices: 62041305--62041347 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
62041295 ATAAGCTTCT
*
62041305 TTACATTCAATTAATAAATGTA
1 TTACATTCAATCAATAAATGTA
62041327 TTACATTCAATCAATAAATGT
1 TTACATTCAATCAATAAATGT
62041348 GAATTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.40
Consensus pattern (22 bp):
TTACATTCAATCAATAAATGTA
Found at i:62045055 original size:274 final size:274
Alignment explanation
Indices: 62044551--62045107 Score: 871
Period size: 274 Copynumber: 2.0 Consensus size: 274
62044541 TACTCAAAAA
* *
62044551 TTGAGGGATGTTGTGTCCCTATTCCGGGACGAAGCTTATCAGTGGTGGTTGACAGTTGAGCAAGG
1 TTGAGGGATGTTGTGTCCCTATTCCGGGACGAAGCTTATCAATGGTGGTTGACAGTTGAGCAAAG
* *
62044616 TGTTCAACTTGAACAGGTGAACTGAGACTATTTCAAGAACACCTTCCAAGGTAAGTATGTGAGGG
66 TGTTCAACCTGAACAGGTGAACTGAGACTATTTCAAGAACACATTCCAAGGTAAGTATGTGAGGG
* * *
62044681 CAAATTATGTTGAGGCTCACCGATACGAGTTCATGAGCCTAGTTTAGGGCGATCGATCGGTGGCC
131 CAAATTATGTTGAAGCTCACCGATACGAGTTCATGAGCCTAGTTCAGGGCGACCGATCGGTGGCC
* * * * * *
62044746 AAATATGAAGTCGAGTTTTTACGACTGAGTAGGTATGTATGGACTCTAGTAGCGTCTAATTATGA
196 AAATATGAAGCCAAGTTTTTACGACTAAATAGGTATGCATGGACTCTAGTAGCGTCTAATTACGA
62044811 AAAGTGTGTAAAGT
261 AAAGTGTGTAAAGT
* * * * *
62044825 TTGAGGGGTGTTGTTTTCTTATTTCGGGACGAAGCTTATCAATGGTGGTTGACAGTTGAGCAAAG
1 TTGAGGGATGTTGTGTCCCTATTCCGGGACGAAGCTTATCAATGGTGGTTGACAGTTGAGCAAAG
* * * *
62044890 TGTTCAGCCTGAACAGGTGAACTGGGACTATTTCAAGAACATATTCCAAGGTTAGTATGTGAGGG
66 TGTTCAACCTGAACAGGTGAACTGAGACTATTTCAAGAACACATTCCAAGGTAAGTATGTGAGGG
62044955 CAAATTATGTTGAAGCTCACCGATACGAGTTCATGAGCCTAGTTCAGGGCGACCGATCGGTGGCC
131 CAAATTATGTTGAAGCTCACCGATACGAGTTCATGAGCCTAGTTCAGGGCGACCGATCGGTGGCC
* *
62045020 AAATATGAAGCCAAGTTTTTGCGACTAAATAGGTATGCATGGACTCTAGTAGCGTCTGATTACGA
196 AAATATGAAGCCAAGTTTTTACGACTAAATAGGTATGCATGGACTCTAGTAGCGTCTAATTACGA
* * *
62045085 TAAGTGTGTGAGGT
261 AAAGTGTGTAAAGT
62045099 TTGAGGGAT
1 TTGAGGGAT
62045108 TGAGATATGA
Statistics
Matches: 255, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
274 255 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (274 bp):
TTGAGGGATGTTGTGTCCCTATTCCGGGACGAAGCTTATCAATGGTGGTTGACAGTTGAGCAAAG
TGTTCAACCTGAACAGGTGAACTGAGACTATTTCAAGAACACATTCCAAGGTAAGTATGTGAGGG
CAAATTATGTTGAAGCTCACCGATACGAGTTCATGAGCCTAGTTCAGGGCGACCGATCGGTGGCC
AAATATGAAGCCAAGTTTTTACGACTAAATAGGTATGCATGGACTCTAGTAGCGTCTAATTACGA
AAAGTGTGTAAAGT
Found at i:62052830 original size:30 final size:30
Alignment explanation
Indices: 62052796--62052860 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
62052786 GGAAGTAAAC
62052796 CTTAAAATTCAGAATTTTGGA-GGAAGAGGA
1 CTTAAAATTCAGAATTTTGGAGGGAA-AGGA
*
62052826 CTTAAAATTCGGAATTTTGGAGGGAAAGGA
1 CTTAAAATTCAGAATTTTGGAGGGAAAGGA
62052856 -TTAAA
1 CTTAAA
62052861 TAGTAAAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 5 0.15
30 24 0.73
31 4 0.12
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (30 bp):
CTTAAAATTCAGAATTTTGGAGGGAAAGGA
Found at i:62057805 original size:10 final size:10
Alignment explanation
Indices: 62057790--62057815 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
62057780 TCCTTCATGT
62057790 AGATGATGAC
1 AGATGATGAC
62057800 AGATGATGAC
1 AGATGATGAC
62057810 AGATGA
1 AGATGA
62057816 AAATCATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.31, T:0.19
Consensus pattern (10 bp):
AGATGATGAC
Found at i:62058515 original size:22 final size:22
Alignment explanation
Indices: 62058490--62058532 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
62058480 ATAAGCTCCT
*
62058490 TTACATTAAATTAATAAATGTA
1 TTACATTAAATCAATAAATGTA
*
62058512 TTACATTCAATCAATAAATGT
1 TTACATTAAATCAATAAATGT
62058533 GAATTAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (22 bp):
TTACATTAAATCAATAAATGTA
Found at i:62061696 original size:3 final size:3
Alignment explanation
Indices: 62061688--62061734 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
62061678 CATTAAGCTG
62061688 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
62061735 ACTAGATGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:62063666 original size:18 final size:18
Alignment explanation
Indices: 62063639--62063674 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
62063629 GCAAGATATC
*
62063639 CCAAATTAAAATCCAAAT
1 CCAAAATAAAATCCAAAT
62063657 CCAAAATAAAATCCAAAT
1 CCAAAATAAAATCCAAAT
62063675 GTCTAGAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.19
Consensus pattern (18 bp):
CCAAAATAAAATCCAAAT
Found at i:62065446 original size:51 final size:49
Alignment explanation
Indices: 62065323--62065508 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 49
62065313 GTGAAAGTGA
* * *
62065323 TGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGCGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGATA-G-T
* * *
62065373 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGATAG-T
* * * * * *
62065423 TCGATCACATGTGTAGTACTATGTGCAGGCCATTACGTGTATCGAATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGATAGT
62065473 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
62065509 TGTGAACCGG
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 42 0.37
51 70 0.62
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGATAGT
Found at i:62065502 original size:102 final size:101
Alignment explanation
Indices: 62065326--62065510 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 101
62065316 AAAGTGATGG
* * * *
62065326 TCACGTGTGTAGTACTATGTGTAGGCTACTACGCGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTATGTGCAGGCCACTACGCGTACCAGAATGATAGGTCACATGTGTAGTAC
62065391 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* * *
62065427 TCACATGTGTAGTACTATGTGCAGGCCATTACGTGTATC-GAAT-AGTGATGGTCACATGTGTAG
1 TCACATGTGTAGTACTATGTGCAGGCCACTACGCGTACCAGAATGA-T-A-GGTCACATGTGTAG
62065490 TACTATGTGCAGGCTACTATG
63 TACTATGTGCAGGCTACTATG
62065511 TGAACCGGTA
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
99 1 0.01
100 5 0.07
101 34 0.46
102 34 0.46
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGCAGGCCACTACGCGTACCAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:62065518 original size:102 final size:101
Alignment explanation
Indices: 62065326--62065518 Score: 264
Period size: 102 Copynumber: 1.9 Consensus size: 101
62065316 AAAGTGATGG
* * * *
62065326 TCACGTGTGTAGTACTATGTGTAGGCTACTACGCGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTATGTGCAGGCCACTACGCGTACCAGAATGATAGGTCACATGTGTAGTAC
*
62065391 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
* * *
62065427 TCACATGTGTAGTACTATGTGCAGGCCATTACGTGTATC-GAAT-AGTGATGGTCACATGTGTAG
1 TCACATGTGTAGTACTATGTGCAGGCCACTACGCGTACCAGAATGA-T-A-GGTCACATGTGTAG
*
62065490 TACTATGTGCAGGCTACTATGTGAACCGG
63 TACTATGTGCAGGCTACTATGCGAACCGG
62065519 TATCATTAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
99 1 0.01
100 5 0.06
101 34 0.43
102 40 0.50
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGCAGGCCACTACGCGTACCAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
Found at i:62065605 original size:46 final size:43
Alignment explanation
Indices: 62065514--62065598 Score: 116
Period size: 46 Copynumber: 1.9 Consensus size: 43
62065504 TACTATGTGA
*
62065514 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
* *
62065557 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGA
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGA
62065599 ATCCACCATG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 5 0.14
44 11 0.31
45 2 0.06
46 18 0.50
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
Found at i:62065757 original size:16 final size:16
Alignment explanation
Indices: 62065736--62065767 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62065726 TGATTGAAAG
*
62065736 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
62065752 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
62065768 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:62078263 original size:27 final size:28
Alignment explanation
Indices: 62078235--62078288 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
62078225 AAATAGGATA
*
62078235 AAAT-AAATAATAA-GTTAATAATAATT
1 AAATAAAATAATAATGGTAATAATAATT
*
62078261 AAATAAAATAATAATGGTATTAATAATT
1 AAATAAAATAATAATGGTAATAATAATT
62078289 GAAGAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 9 0.38
28 11 0.46
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (28 bp):
AAATAAAATAATAATGGTAATAATAATT
Found at i:62079519 original size:28 final size:27
Alignment explanation
Indices: 62079451--62079519 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
62079441 TATATATATA
* * *
62079451 ATATATACGTATAGGGGTTTTGTTATTT
1 ATATATA-ATATATGGGTTTTGGTATTT
*
62079479 ATATATAATATATGGGTTTTGGTGTTAT
1 ATATATAATATATGGGTTTTGGTATT-T
*
62079507 ATGTATAATATAT
1 ATATATAATATAT
62079520 TTACATGGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 15 0.43
28 20 0.57
ACGTcount: A:0.30, C:0.01, G:0.19, T:0.49
Consensus pattern (27 bp):
ATATATAATATATGGGTTTTGGTATTT
Found at i:62079605 original size:29 final size:28
Alignment explanation
Indices: 62079548--62079615 Score: 100
Period size: 29 Copynumber: 2.4 Consensus size: 28
62079538 CACATAGTAC
*
62079548 ATATATATGCGTGGTTTTGCTATACATA
1 ATATATATGCGTGGTTTTACTATACATA
* *
62079576 ATATATATGTGTGGGTTTTACTATATATA
1 ATATATATGCGT-GGTTTTACTATACATA
62079605 ATATATATGCG
1 ATATATATGCG
62079616 ACTATAGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 11 0.31
29 24 0.69
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (28 bp):
ATATATATGCGTGGTTTTACTATACATA
Found at i:62089715 original size:40 final size:40
Alignment explanation
Indices: 62089660--62089794 Score: 207
Period size: 40 Copynumber: 3.4 Consensus size: 40
62089650 AGATCAACCG
*
62089660 AACACACCAGACAGAAGCTCATAAGAGGTAATCCAATTGA
1 AACACACCAGACAGAAGCTCATAAGAGGTAATCCAATCGA
* * *
62089700 AACACACTAGACAGAAGCTCATAACAGGTAATCCAACCGA
1 AACACACCAGACAGAAGCTCATAAGAGGTAATCCAATCGA
* * *
62089740 AACACGCCAGATAGAAGCTCATAAGAGCTAATCCAATCGA
1 AACACACCAGACAGAAGCTCATAAGAGGTAATCCAATCGA
62089780 AACACACCAGACAGA
1 AACACACCAGACAGA
62089795 GAGTATAACA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.45, C:0.26, G:0.16, T:0.13
Consensus pattern (40 bp):
AACACACCAGACAGAAGCTCATAAGAGGTAATCCAATCGA
Found at i:62093407 original size:14 final size:14
Alignment explanation
Indices: 62093390--62093418 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
62093380 TAGGTTTCGA
62093390 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
62093404 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
62093418 G
1 G
62093419 ATTAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:62093423 original size:21 final size:21
Alignment explanation
Indices: 62093381--62093423 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
62093371 GTAGTTAATT
* * *
62093381 AGGTTTCGAGTTTAGGGTTTA
1 AGGTTTAGAGTTTAAGGATTA
*
62093402 AGGTTTAGGGTTTAAGGATTA
1 AGGTTTAGAGTTTAAGGATTA
62093423 A
1 A
62093424 ATTGATAGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.02, G:0.33, T:0.40
Consensus pattern (21 bp):
AGGTTTAGAGTTTAAGGATTA
Found at i:62094571 original size:56 final size:56
Alignment explanation
Indices: 62094505--62094612 Score: 216
Period size: 56 Copynumber: 1.9 Consensus size: 56
62094495 TATAACAAGT
62094505 ATGAGAATTGGGATATTTGTGAAACAAATGAAATATGATAGCATGTGTAAGTTGAA
1 ATGAGAATTGGGATATTTGTGAAACAAATGAAATATGATAGCATGTGTAAGTTGAA
62094561 ATGAGAATTGGGATATTTGTGAAACAAATGAAATATGATAGCATGTGTAAGT
1 ATGAGAATTGGGATATTTGTGAAACAAATGAAATATGATAGCATGTGTAAGT
62094613 GGAATATAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.41, C:0.04, G:0.25, T:0.31
Consensus pattern (56 bp):
ATGAGAATTGGGATATTTGTGAAACAAATGAAATATGATAGCATGTGTAAGTTGAA
Found at i:62096035 original size:27 final size:27
Alignment explanation
Indices: 62096005--62096065 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
62095995 TCATCTCCTA
62096005 GGGGTATAACAGTCATTTTACCTTATG
1 GGGGTATAACAGTCATTTTACCTTATG
** *
62096032 GGGGTATTTCGGTCATTTTACCTTATG
1 GGGGTATAACAGTCATTTTACCTTATG
62096059 GGGGTAT
1 GGGGTAT
62096066 TTTGGTCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.20, C:0.13, G:0.28, T:0.39
Consensus pattern (27 bp):
GGGGTATAACAGTCATTTTACCTTATG
Found at i:62096077 original size:26 final size:27
Alignment explanation
Indices: 62096016--62096084 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
62096006 GGGTATAACA
62096016 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCG
*
62096043 GTCATTTTACCTTATGGGGGTATTTTG
1 GTCATTTTACCTTATGGGGGTATTTCG
*
62096070 GTCA-TTTACCCTATG
1 GTCATTTTACCTTATG
62096085 TCATTCTACC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 10 0.25
27 30 0.75
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCTTATGGGGGTATTTCG
Found at i:62096088 original size:41 final size:42
Alignment explanation
Indices: 62096043--62096126 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 42
62096033 GGGTATTTCG
* * *
62096043 GTCATTTTACCTTATGGGGGTATTTTGGTCA-TTTACCCTAT
1 GTCATTCTACCCTATGGGGGTATTTGGGTCATTTTACCCTAT
* *
62096084 GTCATTCTACCCTATGGGGGTATTTGGGTTATTTTACCTTAT
1 GTCATTCTACCCTATGGGGGTATTTGGGTCATTTTACCCTAT
62096126 G
1 G
62096127 AGGGTATTCC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 27 0.73
42 10 0.27
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (42 bp):
GTCATTCTACCCTATGGGGGTATTTGGGTCATTTTACCCTAT
Found at i:62096089 original size:14 final size:15
Alignment explanation
Indices: 62096070--62096099 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62096060 GGGTATTTTG
62096070 GTCATT-TACCCTAT
1 GTCATTCTACCCTAT
62096084 GTCATTCTACCCTAT
1 GTCATTCTACCCTAT
62096099 G
1 G
62096100 GGGGTATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.20, C:0.30, G:0.10, T:0.40
Consensus pattern (15 bp):
GTCATTCTACCCTAT
Found at i:62096125 original size:68 final size:69
Alignment explanation
Indices: 62096016--62096153 Score: 206
Period size: 68 Copynumber: 2.0 Consensus size: 69
62096006 GGGTATAACA
* * * **
62096016 GTCATTTTACCTTATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTTTGGTCATT-TACC
1 GTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTCCGGTCATTCTACC
62096080 CTAT
66 CTAT
* *
62096084 GTCATTCTACCCTATGGGGGTATTTGGGTTATTTTACCTTATGAGGGTATTCCGGTCATTCTACC
1 GTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTCCGGTCATTCTACC
62096149 CTAT
66 CTAT
62096153 G
1 G
62096154 AGGGTATTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
68 53 0.85
69 9 0.15
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (69 bp):
GTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTCCGGTCATTCTACC
CTAT
Found at i:62096131 original size:27 final size:27
Alignment explanation
Indices: 62096084--62096270 Score: 230
Period size: 27 Copynumber: 6.9 Consensus size: 27
62096074 TTTACCCTAT
* *
62096084 GTCATTCTACCCTATGGGGGTATTTGG
1 GTCATTCTACCCTATGAGGGTATTTCG
* * * *
62096111 GTTATTTTACCTTATGAGGGTATTCCG
1 GTCATTCTACCCTATGAGGGTATTTCG
62096138 GTCATTCTACCCTATGAGGGTATTTCG
1 GTCATTCTACCCTATGAGGGTATTTCG
** * * *
62096165 ACCATTTTACCTTATGAGGGTATTTTG
1 GTCATTCTACCCTATGAGGGTATTTCG
* *
62096192 GTTATTCTACCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATGAGGGTATTTCG
*
62096219 GTCATTCTACCCTATGAGGGTATTTCA
1 GTCATTCTACCCTATGAGGGTATTTCG
* *
62096246 GTCATTTTACCCTATGGGGGTATTT
1 GTCATTCTACCCTATGAGGGTATTT
62096271 TGGTGCAGGT
Statistics
Matches: 133, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (27 bp):
GTCATTCTACCCTATGAGGGTATTTCG
Found at i:62096147 original size:54 final size:54
Alignment explanation
Indices: 62096084--62096270 Score: 266
Period size: 54 Copynumber: 3.5 Consensus size: 54
62096074 TTTACCCTAT
* * *
62096084 GTCATTCTACCCTATGGGGGTATTTGGGTTATTTTACCTTATGAGGGTATTCCG
1 GTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTTCG
* ** *
62096138 GTCATTCTACCCTATGAGGGTATTTCGACCATTTTACCTTATGAGGGTATTTTG
1 GTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTTCG
* * * *
62096192 GTTATTCTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGAGGGTATTTCA
1 GTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTTCG
*
62096246 GTCATTTTACCCTATGGGGGTATTT
1 GTCATTCTACCCTATGGGGGTATTT
62096271 TGGTGCAGGT
Statistics
Matches: 116, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 116 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (54 bp):
GTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTTCG
Found at i:62096236 original size:81 final size:81
Alignment explanation
Indices: 62096086--62096274 Score: 281
Period size: 81 Copynumber: 2.3 Consensus size: 81
62096076 TACCCTATGT
* * * *
62096086 CATTCTACCCTATGGGGGTATTTGGGTTATTTTACCTTATGAGGGTATTCCGGTCATTCTACCCT
1 CATTTTACCCTATGGGGGTATTTTGGTTATTCTACCCTATGAGGGTATTCCGGTCATTCTACCCT
62096151 ATGAGGGTATTTC-GAC
66 ATGAGGGTATTTCAG-C
* * * *
62096167 CATTTTACCTTATGAGGGTATTTTGGTTATTCTACCCTATGGGGGTATTTCGGTCATTCTACCCT
1 CATTTTACCCTATGGGGGTATTTTGGTTATTCTACCCTATGAGGGTATTCCGGTCATTCTACCCT
*
62096232 ATGAGGGTATTTCAGT
66 ATGAGGGTATTTCAGC
62096248 CATTTTACCCTATGGGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTTGGT
62096275 GCAGGTATCG
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 95 0.99
82 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (81 bp):
CATTTTACCCTATGGGGGTATTTTGGTTATTCTACCCTATGAGGGTATTCCGGTCATTCTACCCT
ATGAGGGTATTTCAGC
Found at i:62101604 original size:22 final size:22
Alignment explanation
Indices: 62101574--62101616 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
62101564 ACACCAAAAC
*
62101574 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
62101596 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
62101617 AGCGCCGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:62101749 original size:43 final size:43
Alignment explanation
Indices: 62101688--62101933 Score: 296
Period size: 43 Copynumber: 5.7 Consensus size: 43
62101678 GCGTCGCTAA
* * *
62101688 CTTTAGCGGCGTTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
*
62101731 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * *
62101774 CTTTAGCGACACTTTTCCCACAAACGCTGCTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * *
62101817 CTTTAGCGGCACTTTT-ACACAAACGCCGCTATAGATCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
*** * * *
62101859 CTTTAGCGGCGCTTTTTTTATAAACGCCACTATAGATCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * * **
62101902 TTTTAGCGACGTTTTTTTCACAAACGCCGCTA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
62101934 AAAGTGCTAT
Statistics
Matches: 178, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 38 0.21
43 140 0.79
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
Found at i:62106508 original size:21 final size:21
Alignment explanation
Indices: 62106484--62106524 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
62106474 AACCCTAAAT
62106484 CCCTAACTCTTAACCCCTAAC
1 CCCTAACTCTTAACCCCTAAC
*
62106505 CCCTAACTCTTAATCCCTAA
1 CCCTAACTCTTAACCCCTAA
62106525 ACCTTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (21 bp):
CCCTAACTCTTAACCCCTAAC
Found at i:62106761 original size:23 final size:24
Alignment explanation
Indices: 62106722--62106775 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
62106712 TATATGAAAT
*
62106722 TATTTAATATATAAATTAAAAAAA
1 TATTTAATAAATAAATTAAAAAAA
62106746 TATTTAA-AAATAAATT-AAAAAA
1 TATTTAATAAATAAATTAAAAAAA
*
62106768 TAATTAAT
1 TATTTAAT
62106776 CTAAACCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 12 0.44
23 8 0.30
24 7 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TATTTAATAAATAAATTAAAAAAA
Found at i:62106840 original size:22 final size:22
Alignment explanation
Indices: 62106805--62106867 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
62106795 TTGACCCATG
* *
62106805 AACTCATAAACCCTAAATCCCT
1 AACTCATAACCCCTAAACCCCT
*
62106827 AACTCTTAACCCCTAAACCCCT
1 AACTCATAACCCCTAAACCCCT
62106849 AAC-CACTAACCCCTAAACC
1 AACTCA-TAACCCCTAAACC
62106868 TTAAATCTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (22 bp):
AACTCATAACCCCTAAACCCCT
Found at i:62106916 original size:15 final size:15
Alignment explanation
Indices: 62106880--62106920 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
62106870 AAATCTCAAC
62106880 CCTTAAA-CCATAAT
1 CCTTAAATCCATAAT
*
62106894 CCCT-AATCCATAAT
1 CCTTAAATCCATAAT
62106908 CCTTAAATCCATA
1 CCTTAAATCCATA
62106921 CTCCATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTTAAATCCATAAT
Found at i:62106929 original size:15 final size:15
Alignment explanation
Indices: 62106883--62106929 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
62106873 TCTCAACCCT
*
62106883 TAAA-CCATAATCCC
1 TAAATCCATAATCCA
*
62106897 T-AATCCATAATCCT
1 TAAATCCATAATCCA
*
62106911 TAAATCCATACTCCA
1 TAAATCCATAATCCA
62106926 TAAA
1 TAAA
62106930 CCTTAAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCA
Found at i:62107211 original size:41 final size:40
Alignment explanation
Indices: 62107154--62107269 Score: 178
Period size: 41 Copynumber: 2.9 Consensus size: 40
62107144 TAAAATGTTT
62107154 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCATACCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCA-ACCA
**
62107195 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCAGGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAG-CCCAACCA
**
62107236 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGCC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCC
62107270 ACGAAATGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
40 2 0.03
41 64 0.91
42 4 0.06
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCAACCA
Found at i:62107349 original size:39 final size:39
Alignment explanation
Indices: 62107305--62107383 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
62107295 TGGGCTAAGG
* * *
62107305 TTTTTTGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCATTTTTTT-AAAAACGCCACTAATGCTCA
62107345 TTTTTAGCGGCATTTTTTTAAAAACGCCACTAATGCTCA
1 TTTTTAGCGGCATTTTTTTAAAAACGCCACTAATGCTCA
62107384 ATCTTTAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 19 0.53
40 17 0.47
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (39 bp):
TTTTTAGCGGCATTTTTTTAAAAACGCCACTAATGCTCA
Found at i:62107355 original size:40 final size:40
Alignment explanation
Indices: 62107305--62107442 Score: 136
Period size: 40 Copynumber: 3.5 Consensus size: 40
62107295 TGGGCTAAGG
*
62107305 TTTTTTGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
* *
62107345 TTTTTAGCGGCATTTTTTT-AAAAACGCCACTAATGCTCAA
1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTC-A
* * * *** * *
62107385 TCTTTAGTGGCGATTTCCAG-AAAGCGCCGCTAATGCTTAA
1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGC-TCA
*
62107425 TTTTTACCGGCGTTTTTT
1 TTTTTAGCGGCGTTTTTT
62107443 GTCCAAACGC
Statistics
Matches: 76, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
39 18 0.24
40 57 0.75
41 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
Found at i:62108893 original size:18 final size:17
Alignment explanation
Indices: 62108870--62108915 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
62108860 ATTTAAATTG
62108870 CGGTCGCGGTCGTGTTTT
1 CGGTCGCGGTCGTG-TTT
*
62108888 CGGTCGC-GTCGCGTTT
1 CGGTCGCGGTCGTGTTT
62108904 --GTCGCGGTCGTG
1 CGGTCGCGGTCGTG
62108916 GACATAACGG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
16 3 0.12
17 5 0.20
18 7 0.28
ACGTcount: A:0.00, C:0.26, G:0.41, T:0.33
Consensus pattern (17 bp):
CGGTCGCGGTCGTGTTT
Found at i:62108903 original size:17 final size:18
Alignment explanation
Indices: 62108870--62108903 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
62108860 ATTTAAATTG
*
62108870 CGGTCGCGGTCGTGTTTT
1 CGGTCGCGGTCGCGTTTT
62108888 CGGTCGC-GTCGCGTTT
1 CGGTCGCGGTCGCGTTT
62108904 GTCGCGGTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.00, C:0.26, G:0.38, T:0.35
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:62109252 original size:25 final size:24
Alignment explanation
Indices: 62109194--62109252 Score: 57
Period size: 25 Copynumber: 2.3 Consensus size: 24
62109184 CAGATGGCGA
**
62109194 AAAGTAAAAAAATCTAGATATTTTT
1 AAAG-AAAAAAATCTAGATATTCCT
62109219 AAAGTAAAAAAATCTAGATATAATCCT
1 AAAG-AAAAAAATCTAGATAT--TCCT
62109246 AAA-AAAA
1 AAAGAAAA
62109253 GGCACTGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 25 0.83
27 5 0.17
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (24 bp):
AAAGAAAAAAATCTAGATATTCCT
Found at i:62110196 original size:54 final size:53
Alignment explanation
Indices: 62110048--62110254 Score: 152
Period size: 54 Copynumber: 3.8 Consensus size: 53
62110038 CACCCATTTT
* * *
62110048 AAAATTA-AAAAAA--TTGGGTGCTAAGACACTGATGGCCGGCACCCCAGTATC
1 AAAATTATAAAAAATTTTGGGTGCT-GGACACTGATGGCCGGCACCTCAGTACC
* * * * * *** **
62110099 -AAATTTTAAAAAAATTGGGGTACTGGAACATTGATGATAGGCACCTTTGTACC
1 AAAATTATAAAAAATTTTGGGTGCTGG-ACACTGATGGCCGGCACCTCAGTACC
* * *
62110152 AAAATTGTAAAAAATTTTGGGTGCTAGGACAATGATGGCCGGCACATCAGTACC
1 AAAATTATAAAAAATTTTGGGTGCT-GGACACTGATGGCCGGCACCTCAGTACC
* * *
62110206 ATATTTAAAAAATATATTTTGAGGTGCTGAGACACTGATGGCCGGCACC
1 AAAATTATAAAA-A-ATTTTG-GGTGCTG-GACACTGATGGCCGGCACC
62110255 CCAATACTAG
Statistics
Matches: 117, Mismatches: 29, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
50 5 0.04
51 6 0.05
52 1 0.01
53 25 0.21
54 47 0.40
55 3 0.03
56 7 0.06
57 23 0.20
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (53 bp):
AAAATTATAAAAAATTTTGGGTGCTGGACACTGATGGCCGGCACCTCAGTACC
Found at i:62110269 original size:57 final size:56
Alignment explanation
Indices: 62110165--62110274 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 56
62110155 ATTGTAAAAA
* * *
62110165 ATTTTGGGTGCTAGGACAATGATGGCCGGCACATCAGTACCATATTTAAAAAATAT
1 ATTTTGGGTGCTAGGACAATGATGGCCGGCACACCAATACCAGATTTAAAAAATAT
* * *
62110221 ATTTTGAGGTGCT-GAGACACTGATGGCCGGCACCCCAATACTAGATTTAAAAAA
1 ATTTTG-GGTGCTAG-GACAATGATGGCCGGCACACCAATACCAGATTTAAAAAA
62110275 AAATTGATGT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 7 0.15
57 39 0.85
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (56 bp):
ATTTTGGGTGCTAGGACAATGATGGCCGGCACACCAATACCAGATTTAAAAAATAT
Found at i:62131966 original size:37 final size:36
Alignment explanation
Indices: 62131895--62131984 Score: 94
Period size: 37 Copynumber: 2.4 Consensus size: 36
62131885 ACAAAAAATG
* *
62131895 ATAAAAAAATAAAATTCAATAAAATTTATTAAATTTT
1 ATAAAAACATAAAAATCAATAAAATTTA-TAAATTTT
62131932 AATAAAAATCATAAAAATCAA-AAAATTGTA-AAATTTT
1 -ATAAAAA-CATAAAAATCAATAAAATT-TATAAATTTT
62131969 ATAAAGAAACATAAAA
1 AT-AA-AAACATAAAA
62131985 TATATAGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
36 2 0.04
37 16 0.35
38 16 0.35
39 12 0.26
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (36 bp):
ATAAAAACATAAAAATCAATAAAATTTATAAATTTT
Found at i:62132320 original size:20 final size:20
Alignment explanation
Indices: 62132295--62132343 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
62132285 GCTGACAAAA
62132295 CAGTCACTCTGATTTCAATT
1 CAGTCACTCTGATTTCAATT
62132315 CAGTCACTCTGATTTCAATT
1 CAGTCACTCTGATTTCAATT
62132335 CAGTCACTC
1 CAGTCACTC
62132344 AACTTTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.37
Consensus pattern (20 bp):
CAGTCACTCTGATTTCAATT
Found at i:62132350 original size:20 final size:20
Alignment explanation
Indices: 62132295--62132352 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
62132285 GCTGACAAAA
*
62132295 CAGTCACTCTGATTTCAATT
1 CAGTCACTCTAATTTCAATT
*
62132315 CAGTCACTCTGATTTCAATT
1 CAGTCACTCTAATTTCAATT
62132335 CAGTCACTC-AACTTTCAA
1 CAGTCACTCTAA-TTTCAA
62132353 AAAATAACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 1 0.03
20 35 0.97
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.36
Consensus pattern (20 bp):
CAGTCACTCTAATTTCAATT
Found at i:62132370 original size:30 final size:32
Alignment explanation
Indices: 62132334--62132404 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
62132324 TGATTTCAAT
62132334 TCAGTCACTCAAC-TT-TCAAAAAATAACAAA
1 TCAGTCACTCAACATTATCAAAAAATAACAAA
* *
62132364 TCAGTCACT-AACATTATCAAAAAGTGACAAA
1 TCAGTCACTCAACATTATCAAAAAATAACAAA
62132395 TCAGTCACTC
1 TCAGTCACTC
62132405 GTTAACATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 3 0.08
30 11 0.31
31 22 0.61
ACGTcount: A:0.45, C:0.24, G:0.07, T:0.24
Consensus pattern (32 bp):
TCAGTCACTCAACATTATCAAAAAATAACAAA
Found at i:62138094 original size:18 final size:18
Alignment explanation
Indices: 62138053--62138102 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
62138043 AAAAAAAAAA
62138053 GTTTTGAAATTGAATAAC
1 GTTTTGAAATTGAATAAC
* *
62138071 GATTTGTAAATT-AATAAT
1 GTTTTG-AAATTGAATAAC
*
62138089 GTTTTGAAAATGAA
1 GTTTTGAAATTGAA
62138103 CGACACGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 4 0.15
18 17 0.65
19 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (18 bp):
GTTTTGAAATTGAATAAC
Found at i:62138393 original size:18 final size:18
Alignment explanation
Indices: 62138358--62138397 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
62138348 AGGAAATTTA
*
62138358 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
62138376 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
62138396 TT
1 TT
62138398 AAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:62138413 original size:11 final size:11
Alignment explanation
Indices: 62138397--62138427 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
62138387 TATATATATT
62138397 TAAAAATTATA
1 TAAAAATTATA
*
62138408 TAAAAATAATA
1 TAAAAATTATA
62138419 TAAAAATTA
1 TAAAAATTA
62138428 ATACGGGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:62139910 original size:31 final size:31
Alignment explanation
Indices: 62139844--62139920 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
62139834 ATACATAAAC
* * * *
62139844 TTCAATTACACACCTGAAACTTGAATTGTGG
1 TTCAAATATACACATGAAACTTGAATTGTGA
* *
62139875 TTCAAATATATACATGAAACATTG-ATTTTGA
1 TTCAAATATACACATGAAAC-TTGAATTGTGA
*
62139906 TTCAATTATACACAT
1 TTCAAATATACACAT
62139921 TTAAAAAATG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 34 0.92
32 3 0.08
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (31 bp):
TTCAAATATACACATGAAACTTGAATTGTGA
Found at i:62146264 original size:18 final size:18
Alignment explanation
Indices: 62146241--62146277 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
62146231 CTTTTCATTT
62146241 GTTCTTATTCTATTTTGA
1 GTTCTTATTCTATTTTGA
62146259 GTTCTTATTCTATTTTGA
1 GTTCTTATTCTATTTTGA
62146277 G
1 G
62146278 AGATCTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.14, T:0.59
Consensus pattern (18 bp):
GTTCTTATTCTATTTTGA
Found at i:62147171 original size:5 final size:5
Alignment explanation
Indices: 62147161--62147189 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
62147151 TATACATACG
62147161 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
62147190 ATTGTTACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:62162583 original size:30 final size:30
Alignment explanation
Indices: 62162547--62162611 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
62162537 CCAAAGTGAT
* *
62162547 AACTAAATTTTACTTTGTCTTCATTACCAA
1 AACTAAATTATACTTCGTCTTCATTACCAA
*
62162577 AACTAAATTATACTTCGTCTTTATTACCAA
1 AACTAAATTATACTTCGTCTTCATTACCAA
62162607 AACTA
1 AACTA
62162612 CCCTAATCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.40
Consensus pattern (30 bp):
AACTAAATTATACTTCGTCTTCATTACCAA
Found at i:62169970 original size:16 final size:16
Alignment explanation
Indices: 62169948--62169994 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
62169938 TTATTTTGAA
62169948 ATTAAAAGTATAAAATT
1 ATTAAAA-TATAAAATT
62169965 -TTAAAATATATAAATT
1 ATTAAAATATA-AAATT
*
62169981 AATAAAAATATAAA
1 -ATTAAAATATAAA
62169995 TCTTTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.15
16 11 0.42
17 2 0.08
18 9 0.35
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
ATTAAAATATAAAATT
Found at i:62170719 original size:45 final size:45
Alignment explanation
Indices: 62170666--62171360 Score: 933
Period size: 45 Copynumber: 15.4 Consensus size: 45
62170656 TCCTATACTA
* * * *
62170666 GCAGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCCTATATAG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
* * * *
62170711 GTAGCGAAGTAGATCAAAGATAGCAGATCTTATCTTCCTATATTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
* * * **
62170756 GTAGCGAAGTAGATTGAAGAAAATAGATCTTGTCTTCCTGTATTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
* *
62170801 GCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
* * *
62170846 GTAGCGAAGTAGATCGAAGATAGCAGATCTCGTCTTCCTGTACTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
* *
62170891 GCAGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
* * *
62170936 GTAGCGAAGTAGATCGAAGATAGCAGATCTCGTCTTCCTGTACTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
* *
62170981 GCAACGAAGTAGATCGAAGATAGCAGAT-TTGGTCTTCCTGTACTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTT-GTCTTCCTGTATTG
*
62171026 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTACTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
* *
62171071 GCAGCGAAGTAGATCGAAGATAGTAGATCTTGTCTTCCTGTATTA
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
* *
62171116 GCAGCGAAGTAGATCGAAGGTAGCAGATCTTGTCTTCCTATATTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
* * *
62171161 GCAGCGAAGTAGATCGAAGGTAGCAGATTTTGTCTTCCTATATTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
* *
62171206 GTAGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
* * * ** *
62171251 GCAGCGAAGTAGATCAAAGATAACGGATCTCATCTTCTTGTATTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
** * * * * *
62171296 ATAGCGAAGTAGATCGAAAACAACAGATCTTATTTTCCTGTATTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
*
62171341 GCAGCAAAGTAGATCGAAGA
1 GCAGCGAAGTAGATCGAAGA
62171361 CAGAAGTAAC
Statistics
Matches: 577, Mismatches: 71, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
44 1 0.00
45 574 0.99
46 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (45 bp):
GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
Found at i:62171568 original size:44 final size:44
Alignment explanation
Indices: 62171463--62171572 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 44
62171453 ATCCAGTCTC
* * * * * * *
62171463 ATCTCCCCGAGGTTGCAATAGAGCAGATTGAATAAGCCAATCTT
1 ATCTCCCTGAGGTTGCAGTGGAACAGATTGAAGAAACCAATCCT
62171507 ATCTCCCTGAGGTTGCAGTGGAACAGATTGAAGAAACCAATCCT
1 ATCTCCCTGAGGTTGCAGTGGAACAGATTGAAGAAACCAATCCT
*
62171551 ATCTCCCTGAAGTTGCAGTGGA
1 ATCTCCCTGAGGTTGCAGTGGA
62171573 GTGGATCAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (44 bp):
ATCTCCCTGAGGTTGCAGTGGAACAGATTGAAGAAACCAATCCT
Found at i:62172160 original size:19 final size:19
Alignment explanation
Indices: 62172114--62172165 Score: 86
Period size: 21 Copynumber: 2.6 Consensus size: 19
62172104 AATCTTCAAG
62172114 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
62172133 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
62172154 GATATGCAATCT
1 GATATGCAATCT
62172166 CAGAAGATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.39
21 19 0.61
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:62172750 original size:30 final size:31
Alignment explanation
Indices: 62172695--62172753 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
62172685 AATTTCAAAT
* *
62172695 TTTTTGTTATATATGCATGTATACATACATAC
1 TTTTTGTAATATATACA-GTATACATACATAC
62172727 TTTTTGTAATATATACA-TATACATACA
1 TTTTTGTAATATATACAGTATACATACA
62172754 CATTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 10 0.40
32 15 0.60
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (31 bp):
TTTTTGTAATATATACAGTATACATACATAC
Found at i:62172761 original size:30 final size:31
Alignment explanation
Indices: 62172693--62172761 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
62172683 TAAATTTCAA
* * *
62172693 ATTTTTTGTTATATATGCATGTATACATACAT
1 ATTTTTTGTAATATATACA-GTATACATACAC
*
62172725 ACTTTTTGTAATATATACA-TATACATACAC
1 ATTTTTTGTAATATATACAGTATACATACAC
62172755 ATTTTTT
1 ATTTTTT
62172762 AATTTTTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 16 0.50
32 16 0.50
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (31 bp):
ATTTTTTGTAATATATACAGTATACATACAC
Found at i:62172913 original size:23 final size:22
Alignment explanation
Indices: 62172886--62172929 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
62172876 ATAATTCACA
*
62172886 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
62172909 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
62172930 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:62172913 original size:27 final size:25
Alignment explanation
Indices: 62172867--62172925 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
62172857 TAATATTTTT
62172867 TATTTTTTTATAATTCACATACATATA
1 TATTTTTTTATAATTCACAT--ATATA
62172894 TATTTTTCTTAT-ATGT-ACATATATA
1 TATTTTT-TTATAAT-TCACATATATA
62172919 TATTTTT
1 TATTTTT
62172926 ATATTTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 12 0.40
27 13 0.43
28 5 0.17
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (25 bp):
TATTTTTTTATAATTCACATATATA
Found at i:62172988 original size:4 final size:4
Alignment explanation
Indices: 62172979--62173006 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
62172969 CTTTACTTGA
62172979 TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT
62173007 CACATGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:62173122 original size:3 final size:3
Alignment explanation
Indices: 62173116--62173145 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
62173106 TTATCTTTTC
62173116 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
62173146 TTCTTGATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:62177137 original size:26 final size:26
Alignment explanation
Indices: 62177108--62177158 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
62177098 TGAGTAGGCC
*
62177108 CATTTCACAGCTCGTGTGAGCATATT
1 CATTTCACAACTCGTGTGAGCATATT
*
62177134 CATTTTACAACTCGTGTGAGCATAT
1 CATTTCACAACTCGTGTGAGCATAT
62177159 ATGTATAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (26 bp):
CATTTCACAACTCGTGTGAGCATATT
Found at i:62187908 original size:29 final size:29
Alignment explanation
Indices: 62187874--62187989 Score: 144
Period size: 29 Copynumber: 4.0 Consensus size: 29
62187864 ATTGTCAAGT
* *
62187874 GCCACATGGCCGTGTGGT-AGACTATGTGC
1 GCCACACGGCCGTGTGGTAAGCCT-TGTGC
* *
62187903 GCCACACGGCCGTGTGTTAAGCCTTGTGT
1 GCCACACGGCCGTGTGGTAAGCCTTGTGC
*
62187932 GCCACACGGCCGTGTGTTAAGCCTTGTGC
1 GCCACACGGCCGTGTGGTAAGCCTTGTGC
* * *
62187961 GCCACACAGCCGTGTGGTAGGCCATGTGC
1 GCCACACGGCCGTGTGGTAAGCCTTGTGC
62187990 CAGTCCGTGT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 73 0.95
30 4 0.05
ACGTcount: A:0.16, C:0.28, G:0.33, T:0.23
Consensus pattern (29 bp):
GCCACACGGCCGTGTGGTAAGCCTTGTGC
Found at i:62188077 original size:60 final size:59
Alignment explanation
Indices: 62187968--62188083 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 59
62187958 TGCGCCACAC
* * * * *
62187968 AGCCGTGTGGTAGGCCATGTGCCAGTCCGTGTGGAGCACACAGCTGTGTGTAATTAAGT
1 AGCCGTGTGGTAGACCATGTGCCAGGCCATGTGGAGCACACAGCCGTGTGAAATTAAGT
*
62188027 AGCCTGTGTGGTAGACCGTGTGCCAGGCCATGTGGAGCACAC-GACCGTGTGAAATTA
1 AGCC-GTGTGGTAGACCATGTGCCAGGCCATGTGGAGCACACAG-CCGTGTGAAATTA
62188084 CATGGATCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 5 0.10
60 44 0.90
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.23
Consensus pattern (59 bp):
AGCCGTGTGGTAGACCATGTGCCAGGCCATGTGGAGCACACAGCCGTGTGAAATTAAGT
Found at i:62189114 original size:17 final size:18
Alignment explanation
Indices: 62189089--62189122 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
62189079 AGTTTTCGGT
*
62189089 CTTGGTTTT-GTTTTGGG
1 CTTGATTTTGGTTTTGGG
62189106 CTTGATTTTGGTTTTGG
1 CTTGATTTTGGTTTTGG
62189123 TTTTTTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.03, C:0.06, G:0.32, T:0.59
Consensus pattern (18 bp):
CTTGATTTTGGTTTTGGG
Found at i:62190895 original size:16 final size:16
Alignment explanation
Indices: 62190870--62190903 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62190860 TGACTATATA
*
62190870 TAAAATTTTAATAAAT
1 TAAAAATTTAATAAAT
*
62190886 TAAAAATTTATTAAAT
1 TAAAAATTTAATAAAT
62190902 TA
1 TA
62190904 TTAAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAAAATTTAATAAAT
Found at i:62190924 original size:24 final size:25
Alignment explanation
Indices: 62190881--62190930 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
62190871 AAAATTTTAA
*
62190881 TAAATTAAAAATTTATTAAAT-TAT
1 TAAATTAAAAATATATTAAATATAT
62190905 TAAATTAAAAATA-ATATAAATATAT
1 TAAATTAAAAATATAT-TAAATATAT
62190930 T
1 T
62190931 TTTCAGAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 2 0.09
24 17 0.74
25 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TAAATTAAAAATATATTAAATATAT
Found at i:62193047 original size:5 final size:5
Alignment explanation
Indices: 62193037--62193064 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
62193027 CTAGTGTTTT
62193037 ATTTG ATTTG ATTTG ATTTG ATTTG ATT
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATT
62193065 GCTTTGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (5 bp):
ATTTG
Found at i:62195782 original size:10 final size:10
Alignment explanation
Indices: 62195767--62195793 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
62195757 TAACAAGCAA
62195767 GTAATTGGGT
1 GTAATTGGGT
62195777 GTAATTGGGT
1 GTAATTGGGT
62195787 GTAATTG
1 GTAATTG
62195794 TAAGACACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (10 bp):
GTAATTGGGT
Found at i:62197285 original size:38 final size:38
Alignment explanation
Indices: 62197206--62197320 Score: 131
Period size: 38 Copynumber: 3.0 Consensus size: 38
62197196 TGCTTACTGC
* ** *
62197206 TACTGTTGAACCGAATACATGTTAAGCATACCTACTAT
1 TACTGTTGAACTGAATACATGTTAAGCATGTCTAATAT
* * * *
62197244 TACTGTTAAACTGAATGCATGATAAGCATGTCTAATGT
1 TACTGTTGAACTGAATACATGTTAAGCATGTCTAATAT
* * *
62197282 TACTGTTGAACTAAAAACATGTTAAGCATGTCTACTAT
1 TACTGTTGAACTGAATACATGTTAAGCATGTCTAATAT
62197320 T
1 T
62197321 TTTACAAAAT
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (38 bp):
TACTGTTGAACTGAATACATGTTAAGCATGTCTAATAT
Found at i:62197604 original size:20 final size:21
Alignment explanation
Indices: 62197579--62197619 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
62197569 CAATTTGTAC
*
62197579 TACTGGTAGTT-ATCTACAAA
1 TACTGGTAGTTCATCCACAAA
*
62197599 TACTGGTGGTTCATCCACAAA
1 TACTGGTAGTTCATCCACAAA
62197620 CTGGAGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (21 bp):
TACTGGTAGTTCATCCACAAA
Found at i:62201085 original size:34 final size:35
Alignment explanation
Indices: 62201041--62201107 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
62201031 CAGTAAAATA
*
62201041 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
62201075 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
62201108 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:62202158 original size:22 final size:21
Alignment explanation
Indices: 62202131--62202196 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
62202121 TTGGACCGGC
* *
62202131 TAATAACATTAAAAAATTATAA
1 TAATAAAATT-AAAAATTAAAA
62202153 TAATAAAATTAAAAATTAAAA
1 TAATAAAATTAAAAATTAAAA
*
62202174 T-ATAAAAATATAAAAATTTAAA
1 TAAT-AAAAT-TAAAAATTAAAA
62202196 T
1 T
62202197 TTAAATTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
20 2 0.05
21 16 0.41
22 21 0.54
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TAATAAAATTAAAAATTAAAA
Found at i:62202181 original size:14 final size:14
Alignment explanation
Indices: 62202143--62202188 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
62202133 ATAACATTAA
*
62202143 AAAATTATAATAA-T
1 AAAA-TATAAAAATT
62202157 AAAAT-TAAAAATT
1 AAAATATAAAAATT
62202170 AAAATATAAAAATAT
1 AAAATATAAAAAT-T
62202185 AAAA
1 AAAA
62202189 ATTTAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.18
13 7 0.25
14 11 0.39
15 5 0.18
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:62202210 original size:6 final size:6
Alignment explanation
Indices: 62202187--62202211 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62202177 AAAAATATAA
62202187 AAATTT AAATTT AAATTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT A
62202212 GGCATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:62203126 original size:30 final size:31
Alignment explanation
Indices: 62203090--62203153 Score: 121
Period size: 30 Copynumber: 2.1 Consensus size: 31
62203080 TCCATATTTA
62203090 TGGAAAGTCAAAGATATGGGTATCAA-ATAT
1 TGGAAAGTCAAAGATATGGGTATCAAGATAT
62203120 TGGAAAGTCAAAGATATGGGTATCAAGATAT
1 TGGAAAGTCAAAGATATGGGTATCAAGATAT
62203151 TGG
1 TGG
62203154 CATAAGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 26 0.79
31 7 0.21
ACGTcount: A:0.41, C:0.06, G:0.27, T:0.27
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGGGTATCAAGATAT
Found at i:62203130 original size:15 final size:16
Alignment explanation
Indices: 62203088--62203138 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
62203078 CATCCATATT
62203088 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
62203104 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
62203119 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
62203134 TATGG
1 TATGG
62203139 GTATCAAGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
16 9 0.33
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:62203145 original size:15 final size:15
Alignment explanation
Indices: 62203097--62203150 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
62203087 TTATGGAAAG
62203097 TCAAAGATATGGGTA
1 TCAAAGATATGGGTA
* **
62203112 TCAAATAT-TGGAAA
1 TCAAAGATATGGGTA
62203126 GTCAAAGATATGGGTA
1 -TCAAAGATATGGGTA
62203142 TC-AAGATAT
1 TCAAAGATAT
62203151 TGGCATAAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
14 11 0.35
15 16 0.52
16 4 0.13
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (15 bp):
TCAAAGATATGGGTA
Found at i:62203149 original size:14 final size:14
Alignment explanation
Indices: 62203100--62203150 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
62203090 TGGAAAGTCA
62203100 AAGATATGGGTATC
1 AAGATATGGGTATC
**
62203114 AA-ATATTGGAAAGTC
1 AAGATA-TGGGTA-TC
62203129 AAAGATATGGGTATC
1 -AAGATATGGGTATC
62203144 AAGATAT
1 AAGATAT
62203151 TGGCATAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 3 0.10
14 13 0.45
15 4 0.14
16 6 0.21
17 3 0.10
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.27
Consensus pattern (14 bp):
AAGATATGGGTATC
Found at i:62213349 original size:24 final size:23
Alignment explanation
Indices: 62213305--62213350 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
62213295 TACTTTTATA
62213305 AATATTATAGATAATACATATTCT
1 AATATTATAGATAATA-ATATTCT
62213329 AATATTATATGTATAAT-ATATT
1 AATATTATA-G-ATAATAATATT
62213351 ACAGAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 14 0.70
25 1 0.05
26 5 0.25
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (23 bp):
AATATTATAGATAATAATATTCT
Found at i:62214988 original size:26 final size:26
Alignment explanation
Indices: 62214952--62215001 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
62214942 TTGACAATAT
*
62214952 TTTTGAAAAGTGCTGTGAAAAAGTGC
1 TTTTGAAAAGTGCTATGAAAAAGTGC
* *
62214978 TTTTGAGAAGTGCTATGGAAAAGT
1 TTTTGAAAAGTGCTATGAAAAAGT
62215002 TTGGTTTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (26 bp):
TTTTGAAAAGTGCTATGAAAAAGTGC
Found at i:62223200 original size:125 final size:125
Alignment explanation
Indices: 62222957--62223523 Score: 742
Period size: 126 Copynumber: 4.5 Consensus size: 125
62222947 GATAAAATCA
* * * * * *
62222957 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
62223022 AGGTCCTAGAAAAATAATTTTGACTTAACGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGACTTGACATTTTTGAGCAAATAGTTTAAAAAACGCTTC
* * * * * * *
62223082 AAGCAGGATGTTTTGTAATAAGAATTTGTGAAATCGCGCCCTCGTGGACGTGTTTTTACTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
62223147 TGGTCCTGGAAGAAATAATTTCGAGTTGACATTTTTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGACTTGACATTTTTGAGCAAATAGTTTAAAAAACGCTTC
* *
62223208 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCACCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * * *
62223273 AGGTCCTGAAAAAATAATTTTGAGTTGACATTTCTGAGCAAATAGTATAAAACAACGCTGC
66 AGGTCCTGGAAAAATAATTTCGACTTGACATTTTTGAGCAAATAGTTTAAAA-AACGCTTC
* * * * *
62223334 AAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCTCTCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * *
62223398 TTGGTCCTGGAAAAATAATTTCGACTTGACGTTTTTGAGCAAATAGTAT-AAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTCGACTTGACATTTTTGAGCAAATAGTTTAAAAAACGCTTC
* * *
62223458 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGGCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
62223523 A
66 A
62223524 ACATGTTTGG
Statistics
Matches: 384, Mismatches: 54, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
123 2 0.01
124 62 0.16
125 103 0.27
126 215 0.56
127 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (125 bp):
AAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGACTTGACATTTTTGAGCAAATAGTTTAAAAAACGCTTC
Found at i:62223416 original size:251 final size:249
Alignment explanation
Indices: 62222957--62223523 Score: 816
Period size: 251 Copynumber: 2.3 Consensus size: 249
62222947 GATAAAATCA
* * * * *
62222957 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
62223022 AGGTCCTAGAAAAATAATTTTGACTTAACGTTTTTGAGCAAATAGTTTAAAAAACGCTTCAAGCA
66 AGGTCCTAGAAAAATAATTTTGACTTAACATTTCTGAGCAAATAGTATAAAAAACGCTGCAAGCA
* * * *
62223087 GGATGTTTTGTAATAAGAATTTGTGAAATCGCGCCCTCGTGGACGTGTTTTTACTACAGTTGGTC
131 GCATGTTTTG-AAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTC
* *
62223152 CTGGAAGAAATAATTTCGAGTTGACATTTTTGAGCAAATAGTTTAAAAAACGCTTC
195 CTGGAAGAAATAATTTCGACTTGACATTTTTGAGCAAATAGTAT-AAAAACGCTTC
*
62223208 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCACCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
62223273 AGGTCCT-GAAAAAATAATTTTGAGTTGACATTTCTGAGCAAATAGTATAAAACAACGCTGCAAG
66 AGGTCCTAG-AAAAATAATTTTGACTTAACATTTCTGAGCAAATAGTATAAAA-AACGCTGCAAG
* * *
62223337 CAGCATGCTATTTG-AGAAGAATTTGTGAAATCGCTCTCTCGTGGACGCGCTTTTGCTACAGTTG
129 CAGCATG-T-TTTGAAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTG
* *
62223401 GTCCTGGAA-AAATAATTTCGACTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTC
192 GTCCTGGAAGAAATAATTTCGACTTGACATTTTTGAGCAAATAGTATAAAAACGCTTC
* * * *
62223458 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGGCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
62223523 A
66 A
62223524 ACATGTTTGG
Statistics
Matches: 284, Mismatches: 28, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
250 72 0.25
251 138 0.49
252 69 0.24
253 1 0.00
254 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (249 bp):
AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTAGAAAAATAATTTTGACTTAACATTTCTGAGCAAATAGTATAAAAAACGCTGCAAGCA
GCATGTTTTGAAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTCC
TGGAAGAAATAATTTCGACTTGACATTTTTGAGCAAATAGTATAAAAACGCTTC
Found at i:62227463 original size:10 final size:10
Alignment explanation
Indices: 62227428--62227474 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
62227418 ATTTTTACGG
*
62227428 TTTAAAAAAG
1 TTTAAAAAAA
62227438 TTTAAAAAAA
1 TTTAAAAAAA
*
62227448 -TAAAAAAAA
1 TTTAAAAAAA
**
62227457 TTTAAAATTA
1 TTTAAAAAAA
62227467 TTTAAAAA
1 TTTAAAAA
62227475 TAGGGATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:62227516 original size:51 final size:51
Alignment explanation
Indices: 62227472--62227569 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
62227462 AATTATTTAA
62227472 AAATAGGGATTTAAGAAAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAAAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * * *
62227523 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAAAAATTTAGAAGGAACTTGAGAGCAAATTGA
62227570 GAGGAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.23, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAAAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:62227545 original size:11 final size:11
Alignment explanation
Indices: 62227531--62227605 Score: 59
Period size: 11 Copynumber: 6.7 Consensus size: 11
62227521 ATAAATATGG
62227531 ATTTGAGAGAA
1 ATTTGAGAGAA
*
62227542 ATTTTGA-AGGA
1 A-TTTGAGAGAA
62227553 ATTTGAGAGCAA
1 ATTTGAGAG-AA
62227565 A-TTGAGAGGAA
1 ATTTGAGA-GAA
62227576 ATTT-AGAAGAA
1 ATTTGAG-AGAA
*
62227587 A-TTGGGAGGAA
1 ATTTGAGA-GAA
62227598 ATTTGAGA
1 ATTTGAGA
62227606 TAGGATTAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 17
0.71 0.06 0.24
Matches are distributed among these distances:
10 8 0.16
11 27 0.53
12 16 0.31
ACGTcount: A:0.43, C:0.01, G:0.29, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:62227574 original size:22 final size:22
Alignment explanation
Indices: 62227531--62227605 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 22
62227521 ATAAATATGG
62227531 ATTTGAGAGAAATTTTGA-AGG-A
1 ATTTGAGAGAAA--TTGAGAGGAA
62227553 ATTTGAGAGCAAATTGAGAGGAA
1 ATTTGAGAG-AAATTGAGAGGAA
*
62227576 ATTT-AGAAGAAATTGGGAGGAA
1 ATTTGAG-AGAAATTGAGAGGAA
62227598 ATTTGAGA
1 ATTTGAGA
62227606 TAGGATTAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
21 4 0.09
22 31 0.66
23 12 0.26
ACGTcount: A:0.43, C:0.01, G:0.29, T:0.27
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAGGAA
Found at i:62227604 original size:34 final size:34
Alignment explanation
Indices: 62227531--62227605 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 34
62227521 ATAAATATGG
* *
62227531 ATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAA
1 ATTTGAGAGAAATTTAGAAGGAAATTGAGAGCAA
* *
62227565 A-TTGAGAGGAAATTTAGAA-GAAATTGGGAGGAA
1 ATTTGAGA-GAAATTTAGAAGGAAATTGAGAGCAA
62227598 ATTTGAGA
1 ATTTGAGA
62227606 TAGGATTAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 18 0.51
34 17 0.49
ACGTcount: A:0.43, C:0.01, G:0.29, T:0.27
Consensus pattern (34 bp):
ATTTGAGAGAAATTTAGAAGGAAATTGAGAGCAA
Found at i:62228708 original size:21 final size:21
Alignment explanation
Indices: 62228682--62228737 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
62228672 AACAACGGTG
*
62228682 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
62228703 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
62228724 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
62228738 AACAACGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:62228971 original size:15 final size:15
Alignment explanation
Indices: 62228951--62229006 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
62228941 ATTTACTAAA
*
62228951 ATTATAATATATAAT
1 ATTATAAAATATAAT
62228966 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
62228979 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
62228992 ATTATTAAATATAAT
1 ATTATAAAATATAAT
62229007 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:62229001 original size:26 final size:25
Alignment explanation
Indices: 62228961--62229023 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
62228951 ATTATAATAT
62228961 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
62228986 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
62229013 AAAATA-TATAA
1 ATAATATTATAA
62229024 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:62229019 original size:59 final size:59
Alignment explanation
Indices: 62228956--62229154 Score: 205
Period size: 59 Copynumber: 3.3 Consensus size: 59
62228946 CTAAAATTAT
62228956 AATATATAATATT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
* * * * * *
62229015 AATATATAATTTAATAAAAT-T--CTTAGTATTAAATATTCTT--ATATGAATTT-ACTAA
1 AATATATAATTTAATAAAATATAATTTA-AAATAATTATTATTAAATAT-AATTTAACAAA
*
62229070 AATCATAATATATTATACTATAAAATATAATTTAAAATAATTATGATTAAATATAATTTAACAAA
1 AAT-AT-ATA-ATT-TA--ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
62229135 AATATATAATTTAATAAAAT
1 AATATATAATTTAATAAAAT
62229155 TCTTAGTATT
Statistics
Matches: 112, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
55 11 0.10
56 10 0.09
57 13 0.12
58 6 0.05
59 26 0.23
61 9 0.08
62 4 0.04
63 12 0.11
64 10 0.09
65 11 0.10
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (59 bp):
AATATATAATTTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
Found at i:62229067 original size:120 final size:120
Alignment explanation
Indices: 62228934--62229173 Score: 444
Period size: 120 Copynumber: 2.0 Consensus size: 120
62228924 TTTAATAGAA
* * *
62228934 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
62228999 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
*
62229054 TATATGAATTTACTAAAATCATAATATATTATACTATAAAATATAATTTAAAATAATTATGATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
62229119 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
62229174 AATGATTGTA
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
Found at i:62240116 original size:7 final size:7
Alignment explanation
Indices: 62240104--62240128 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
62240094 TGAGTTTATT
62240104 AGAACCC
1 AGAACCC
62240111 AGAACCC
1 AGAACCC
62240118 AGAACCC
1 AGAACCC
62240125 AGAA
1 AGAA
62240129 TTAGTGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.36, G:0.16, T:0.00
Consensus pattern (7 bp):
AGAACCC
Found at i:62242111 original size:52 final size:51
Alignment explanation
Indices: 62242026--62242226 Score: 243
Period size: 52 Copynumber: 4.0 Consensus size: 51
62242016 ACAATAAATA
* * * *
62242026 AATAAGTAAATAA-TAGT-AAAGTAAAAAAATTCATGAAAGGTTGAAATTGT
1 AATAA-TAAATAAGTAATAAAAATAAAAAAATTCATGAAAGGCTGAAATTGC
* *
62242076 AATAATAAATAAGTAATTAAAAATAAAAAAATTCATGAAAGGCTAAAATTAC
1 AATAATAAATAAGTAA-TAAAAATAAAAAAATTCATGAAAGGCTGAAATTGC
*
62242128 AATAATAAATAAATAAGTAAATAAT-AAAAAATTCATGAAAGGCT-AAAGTTGC
1 AATAATAAATAAGTAA-TAAA-AATAAAAAAATTCATGAAAGGCTGAAA-TTGC
*
62242180 AATAATAAATAAGT-A-AATAATAAAAAAATTCATGAAAGGCTGAAATT
1 AATAATAAATAAGTAATAAAAATAAAAAAATTCATGAAAGGCTGAAATT
62242227 AAATAAATAA
Statistics
Matches: 133, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
48 3 0.02
49 30 0.23
50 10 0.08
51 5 0.04
52 82 0.62
53 3 0.02
ACGTcount: A:0.58, C:0.04, G:0.11, T:0.26
Consensus pattern (51 bp):
AATAATAAATAAGTAATAAAAATAAAAAAATTCATGAAAGGCTGAAATTGC
Found at i:62242122 original size:26 final size:26
Alignment explanation
Indices: 62242093--62242174 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
62242083 AATAAGTAAT
62242093 TAAAAATAAAAAAATTCATGAAAGGC
1 TAAAAATAAAAAAATTCATGAAAGGC
* * * ** * *
62242119 TAAAATTACAATAATAAATAAATAAG-
1 TAAAAATAAAAAAATTCATGAA-AGGC
62242145 TAAATAAT-AAAAAATTCATGAAAGGC
1 TAAA-AATAAAAAAATTCATGAAAGGC
62242171 TAAA
1 TAAA
62242175 GTTGCAATAA
Statistics
Matches: 39, Mismatches: 14, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
25 2 0.05
26 33 0.85
27 4 0.10
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.23
Consensus pattern (26 bp):
TAAAAATAAAAAAATTCATGAAAGGC
Found at i:62242236 original size:101 final size:104
Alignment explanation
Indices: 62242020--62242236 Score: 295
Period size: 101 Copynumber: 2.1 Consensus size: 104
62242010 AAGGCAACAA
* * *
62242020 TAAATAAATAAGTAAATAATAGTAAAGTAAAAAAATTCATGAAAGGTTGAAATTGTAATAATAAA
1 TAAATAAATAAATAAATAATAGTAAAGTAAAAAAATTCATGAAAGGCTGAAATTGCAATAATAAA
62242085 TAAGTAATTAAAAATAAAAAAATTCATGAAAGGCTAAAAT
66 TAAGTAA-TAAAAATAAAAAAATTCATGAAAGGCTAAAAT
62242125 TACAAT-AATAAATAAAT-A-AGTAAA-TAATAAAAAATTCATGAAAGGCT-AAAGTTGCAATAA
1 TA-AATAAATAAATAAATAATAGTAAAGT-A-AAAAAATTCATGAAAGGCTGAAA-TTGCAATAA
* *
62242185 TAAATAAGT-A-AATAATAAAAAAATTCATGAAAGGCTGAAAT
62 TAAATAAGTAATAAAAATAAAAAAATTCATGAAAGGCTAAAAT
62242226 TAAATAAATAA
1 TAAATAAATAA
62242237 GGGACTGAAT
Statistics
Matches: 102, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
100 3 0.03
101 36 0.35
102 1 0.01
103 11 0.11
104 36 0.35
105 12 0.12
106 3 0.03
ACGTcount: A:0.59, C:0.04, G:0.11, T:0.26
Consensus pattern (104 bp):
TAAATAAATAAATAAATAATAGTAAAGTAAAAAAATTCATGAAAGGCTGAAATTGCAATAATAAA
TAAGTAATAAAAATAAAAAAATTCATGAAAGGCTAAAAT
Found at i:62242315 original size:31 final size:33
Alignment explanation
Indices: 62242253--62242317 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 33
62242243 GAATCGAAAT
* *
62242253 TTAAATAAAATTGTAAGTATAAATCATAATAAA
1 TTAAATAAAATTGTAAGTATAAAACAAAATAAA
62242286 TTAAAT-AAATTG-AA-TAATAAAACAAAATAAA
1 TTAAATAAAATTGTAAGT-ATAAAACAAAATAAA
62242317 T
1 T
62242318 GACCAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 1 0.03
31 16 0.55
32 6 0.21
33 6 0.21
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (33 bp):
TTAAATAAAATTGTAAGTATAAAACAAAATAAA
Found at i:62244053 original size:45 final size:44
Alignment explanation
Indices: 62243763--62244263 Score: 416
Period size: 44 Copynumber: 11.0 Consensus size: 44
62243753 GTATGGGAAG
* * * **
62243763 TGTAGTTTCAATCTACTCCGCTATAACTTCAGGGAGATAAGATT
1 TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* *
62243807 TGTAGCTGT-AATCTACTCCACTGCAACTTCATGGAGATAAGATTT
1 TGTAGCT-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT
* * * * * *
62243852 GTAGGTTTTAGTTTTAATCTGGTCTACTGCAACTTCAGAGAGATAAAATT
1 -T--G---TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * * * * * * *
62243902 TGTGGCCTT-AGTTTG-TCCCACTGCAATTTTAAGGAAATAAGACT
1 TGTAG-CTTCAATCTGCT-CCACTGCAACTTCAGGGAGATAAGATT
* * *
62243946 CGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATT
1 TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * * *
62243990 TGTAGCTTCAATCTGCTCCATTGCAACTCCAAGAAGATAAGATT
1 TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
*
62244034 TGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * * * * *
62244079 CAT-TATCTTCAATCTACTCCACTACAATTTTAGGGAGATAAGATC
1 --TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * *
62244124 TGTAGCTTTAATCTGCTCCACTACAATTTCAGGGAGATAAGATT
1 TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* *
62244168 TGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* * *
62244212 CGCCATGGTAACTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATT
1 -----T-GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
62244262 TG
1 TG
62244264 CTATGGAGAC
Statistics
Matches: 372, Mismatches: 62, Indels: 46
0.77 0.13 0.10
Matches are distributed among these distances:
43 5 0.01
44 206 0.55
45 81 0.22
46 1 0.00
47 2 0.01
48 1 0.00
49 2 0.01
50 43 0.12
51 31 0.08
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (44 bp):
TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
Found at i:62244168 original size:178 final size:179
Alignment explanation
Indices: 62243919--62244261 Score: 483
Period size: 178 Copynumber: 1.9 Consensus size: 179
62243909 TTAGTTTGTC
* **
62243919 CCACTGCAATTTTAAGGAAATAAGACTCGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGAT
1 CCACTACAATTTTAAGGAAATAAGACTCGTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGAT
* * *
62243984 AAGATTTGTAGCTTCAATCTGCTCCATTGCAACTCCAAGAAGATAAGATT-TGCTATCTTCAATC
66 AAGATTTGTAGCTTCAATCTACTCCACTGCAACTCCAAGAAGATAAGATTCTGCTAACTTCAATC
* *
62244048 TGCTCCACTGCAACTTCAGGGAGATAAGATTCATTATCTTCAATCTACT
131 TACTCCACTGCAACTTCAAGGAGATAAGATTCATTATCTTCAATCTACT
* * *
62244097 CCACTACAATTTTAGGGAGATAAGA-TCTGTAGCTTTAATCTGCTCCACTACAATTTCAGGGAGA
1 CCACTACAATTTTAAGGAAATAAGACTC-GTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGA
* * * * *
62244161 TAAGATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATGGTAACTT
65 TAAGATTTGTAGCTTCAATCTACTCCACTGCAACTCCAAGAAGATAAGATT---C-TGCTAACTT
62244226 CAATCTACTCCACTGCAACTTCAAGGAGATAAGATT
126 CAATCTACTCCACTGCAACTTCAAGGAGATAAGATT
62244262 TGCTATGGAG
Statistics
Matches: 143, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
177 2 0.01
178 100 0.70
183 41 0.29
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (179 bp):
CCACTACAATTTTAAGGAAATAAGACTCGTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGAT
AAGATTTGTAGCTTCAATCTACTCCACTGCAACTCCAAGAAGATAAGATTCTGCTAACTTCAATC
TACTCCACTGCAACTTCAAGGAGATAAGATTCATTATCTTCAATCTACT
Found at i:62257890 original size:19 final size:20
Alignment explanation
Indices: 62257868--62257919 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
62257858 GGGTCTTTTT
*
62257868 ATGAAATTTAATGCAT-ATG-
1 ATGAAATGTAATGC-TGATGC
62257887 ATGAAATGTAATGCTGATGC
1 ATGAAATGTAATGCTGATGC
62257907 ATGAAATG-AATGC
1 ATGAAATGTAATGC
62257920 AAAAAAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 21 0.70
20 8 0.27
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGAAATGTAATGCTGATGC
Found at i:62276085 original size:10 final size:10
Alignment explanation
Indices: 62276066--62276101 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
62276056 AAATACATTG
62276066 AAAA-ATAAT
1 AAAATATAAT
62276075 AAAATATAAT
1 AAAATATAAT
*
62276085 AAAATAAAAT
1 AAAATATAAT
62276095 AAAATAT
1 AAAATAT
62276102 TTAAATAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 4 0.17
10 20 0.83
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAATATAAT
Found at i:62282177 original size:5 final size:5
Alignment explanation
Indices: 62282162--62282200 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
62282152 GCAAAATTAA
62282162 AAAAG -AAAG AAAAG AAAAG AAAAG -AAAG -AAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
62282201 GGAAAGAGCG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 12 0.38
5 20 0.62
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:62282205 original size:9 final size:9
Alignment explanation
Indices: 62282162--62282196 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
62282152 GCAAAATTAA
62282162 AAAAGAAAG
1 AAAAGAAAG
62282171 AAAAGAAAAG
1 AAAAG-AAAG
62282181 AAAAGAAAG
1 AAAAGAAAG
62282190 -AAAGAAA
1 AAAAGAAA
62282197 AGAAGGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 7 0.28
9 9 0.36
10 9 0.36
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:62284678 original size:48 final size:48
Alignment explanation
Indices: 62284617--62284708 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
62284607 TTCAAGAAGG
* *
62284617 GATAAATAATGATAAGAGTGTACACAGTGGAAGACCAAGTTTAGTAAT
1 GATAAATAATGATAAGAATGTACACAGTGGAAAACCAAGTTTAGTAAT
* * *
62284665 GATAAATAGTGATAAGAATGTAGATAGTGGAAAACCAAGTTTAG
1 GATAAATAATGATAAGAATGTACACAGTGGAAAACCAAGTTTAG
62284709 CATTGCATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (48 bp):
GATAAATAATGATAAGAATGTACACAGTGGAAAACCAAGTTTAGTAAT
Found at i:62292990 original size:46 final size:46
Alignment explanation
Indices: 62292923--62293077 Score: 197
Period size: 46 Copynumber: 3.6 Consensus size: 46
62292913 TTTGAGTACT
* *
62292923 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
62292969 TCTGATCAAGTGAAAAAGTGATAA---GT-G---T---TACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
62293005 TCTGATCAA-TAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGT-GAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
62293051 TCTGATCAAGTGAAAAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
62293078 CTATACTTAT
Statistics
Matches: 93, Mismatches: 4, Indels: 24
0.77 0.03 0.20
Matches are distributed among these distances:
35 1 0.01
36 29 0.31
39 3 0.03
40 1 0.01
42 1 0.01
43 3 0.03
46 54 0.58
47 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:62293002 original size:36 final size:36
Alignment explanation
Indices: 62292961--62293099 Score: 145
Period size: 36 Copynumber: 3.6 Consensus size: 36
62292951 TAGCTTTAGC
62292961 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
*
62292997 TACACTTATCTGATCAA-TAGACAAAGTGATAAGTGGTAGCTTT
1 TACACTTATCTGATCAAGT-GAAAAAGTGATAA---GT-G---T
*
62293040 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
1 ---TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
*
62293079 TATACTTATCTGATCAAGTGA
1 TACACTTATCTGATCAAGTGA
62293100 TAACTATTTT
Statistics
Matches: 87, Mismatches: 4, Indels: 24
0.76 0.03 0.21
Matches are distributed among these distances:
35 1 0.01
36 49 0.56
39 2 0.02
40 1 0.01
42 1 0.01
43 3 0.03
46 29 0.33
47 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.31
Consensus pattern (36 bp):
TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
Done.