Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 195 of 427
Found at i:54288808 original size:39 final size:39
Alignment explanation
Indices: 54288764--54288887 Score: 149
Period size: 39 Copynumber: 3.2 Consensus size: 39
54288754 TATGAGATTG
*
54288764 AAAATATCCAGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *** *
54288803 AAAATATCTGGACATGAGATCTATAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
54288842 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
54288881 AAAATAT
1 AAAATAT
54288888 TTGGGTTAAA
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:54288908 original size:78 final size:76
Alignment explanation
Indices: 54288763--54288917 Score: 168
Period size: 78 Copynumber: 2.0 Consensus size: 76
54288753 GTATGAGATT
* * * *
54288763 GAAAATATCCAGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCTGGACATGAGATCTATA
1 GAAAATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCTGGACATAAGACCCATA
*
54288828 GGCTATATGCTA
66 GGCT-TACGCTA
* * * * ** *
54288840 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATTTGG-GTTAAAGACCCG
1 GAAA-ATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCTGGACAT-AAGACCCA
54288904 TAGGCTTACGCTA
64 TAGGCTTACGCTA
54288917 G
1 G
54288918 TAATGTATTC
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
77 12 0.19
78 52 0.81
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (76 bp):
GAAAATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCTGGACATAAGACCCATA
GGCTTACGCTA
Found at i:54290866 original size:27 final size:27
Alignment explanation
Indices: 54290808--54291138 Score: 337
Period size: 27 Copynumber: 12.3 Consensus size: 27
54290798 AAGGGCAAAA
* * *
54290808 TGGTAATTTTACCCCACAA-GGTATCT
1 TGGTAATTCTACCCTACAAGGGTATTT
*
54290834 TGGTAATTCCACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
* * * *
54290861 TAGTAATTCTACCTTATAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
*
54290888 TAGTAATTCTACCCTAC-AGCGGTATTT
1 TGGTAATTCTACCCTACAAG-GGTATTT
*
54290915 TGATAATTCTACCCTAC-AGAGGTATTT
1 TGGTAATTCTACCCTACAAG-GGTATTT
* *
54290942 CGGTAATTCTACCCTACAAGGGTATTC
1 TGGTAATTCTACCCTACAAGGGTATTT
* *
54290969 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
* * * *
54290996 CGATAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAAGGGTATTT
* * *
54291023 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
**
54291050 CAGTAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
* * ** *
54291077 CGATAATTCTACCCTGTAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTT
* *
54291104 CGGTAATTCTACCCTA-TAGAGGTATTT
1 TGGTAATTCTACCCTACAAG-GGTATTT
54291131 TGGTAATT
1 TGGTAATT
54291139 TTATTGATCT
Statistics
Matches: 265, Mismatches: 36, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
26 18 0.07
27 245 0.92
28 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAAGGGTATTT
Found at i:54291137 original size:81 final size:81
Alignment explanation
Indices: 54290808--54291138 Score: 391
Period size: 81 Copynumber: 4.1 Consensus size: 81
54290798 AAGGGCAAAA
* * * * * **
54290808 TGGTAATTTTACCCCACAA-GGTATCTT-GGTAATTCCACCCTACAAGGGTATTTTAGTAATTCT
1 TGGTAATTCTACCCTACAAGGGTAT-TTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCT
* * *
54290871 ACCTTATAGGGGTATTT
65 ACCCTACAGAGGTATTT
* * *
54290888 TAGTAATTCTACCCTAC-AGCGGTATTTTGATAATTCTACCCTACAGAGGTATTTCGGTAATTCT
1 TGGTAATTCTACCCTACAAG-GGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCT
*
54290952 ACCCTACA-AGGGTATTC
65 ACCCTACAGA-GGTATTT
* * * *
54290969 CGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTGCGATAATTCTA
1 TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
*
54291034 CCCTACAGGGGTATTT
66 CCCTACAGAGGTATTT
** **
54291050 CAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTGTAGGGGTATTTCGGTAATTCTA
1 TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
*
54291115 CCCTATAGAGGTATTT
66 CCCTACAGAGGTATTT
54291131 TGGTAATT
1 TGGTAATT
54291139 TTATTGATCT
Statistics
Matches: 213, Mismatches: 32, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
79 1 0.00
80 16 0.08
81 195 0.92
82 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (81 bp):
TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
CCCTACAGAGGTATTT
Found at i:54291138 original size:54 final size:54
Alignment explanation
Indices: 54290827--54291119 Score: 394
Period size: 54 Copynumber: 5.4 Consensus size: 54
54290817 TACCCCACAA
* * * *
54290827 GGTATCTT-GGTAATTCCACCCTACAAGGGTATTT-TAGTAATTCTACCTTATAGG
1 GGTAT-TTCGGTAATTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGG
** * *
54290881 GGTATTTTAGTAATTCTACCCTAC-AGCGGTATTTTGATAATTCTACCCTACAGA
1 GGTATTTCGGTAATTCTACCCTACAAG-GGTATTTCGATAATTCTACCCTACAGG
* *
54290935 GGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGG
* * *
54290989 GGTATTTCGATAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGG
* **
54291043 GGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTGTAGG
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGG
54291097 GGTATTTCGGTAATTCTACCCTA
1 GGTATTTCGGTAATTCTACCCTA
54291120 TAGAGGTATT
Statistics
Matches: 212, Mismatches: 23, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
53 4 0.02
54 205 0.97
55 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGG
Found at i:54291210 original size:27 final size:27
Alignment explanation
Indices: 54291153--54291220 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
54291143 TGATCTAGGG
* * *
54291153 TATTTCAGTAATTTTGCAAACTGAGGG
1 TATTTCAGTAATTTTACAAACTAAGGA
54291180 TATTTCAGTAATTTTACAAA-TCAAGGA
1 TATTTCAGTAATTTTACAAACT-AAGGA
**
54291207 TATTTGGGTAATTT
1 TATTTCAGTAATTT
54291221 GGTAAACTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAACTAAGGA
Found at i:54293144 original size:27 final size:27
Alignment explanation
Indices: 54293082--54293144 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
54293072 TAGTCACTTG
*
54293082 CCCACAAGGGCAAAACAGTCATTTAAC
1 CCCACAAGGGCAAAACAGTAATTTAAC
* ** ** *
54293109 ACCTTAAGGGCAAAATGGTAATTTTAC
1 CCCACAAGGGCAAAACAGTAATTTAAC
54293136 CCCACAAGG
1 CCCACAAGG
54293145 TATCTTGGTA
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (27 bp):
CCCACAAGGGCAAAACAGTAATTTAAC
Found at i:54293182 original size:27 final size:27
Alignment explanation
Indices: 54293125--54293454 Score: 457
Period size: 27 Copynumber: 12.3 Consensus size: 27
54293115 AGGGCAAAAT
* * *
54293125 GGTAATTTTACCCCACA-AGGTATCTT-
1 GGTAATTCTACCCTACAGGGGTAT-TTC
*
54293151 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
54293178 AGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54293205 AGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54293232 GATAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54293259 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
54293286 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54293313 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54293340 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54293367 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54293394 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
54293421 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54293448 AGTAATT
1 GGTAATT
54293455 TTGTAAACCA
Statistics
Matches: 273, Mismatches: 29, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
26 17 0.06
27 256 0.94
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:54293573 original size:54 final size:54
Alignment explanation
Indices: 54293412--54293590 Score: 155
Period size: 54 Copynumber: 3.3 Consensus size: 54
54293402 TACCCTATAG
* ** * * *
54293412 GGGTATTTCGGTAATTCTACCCTA-CAGGGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTA-CAAACCAGGGGTATTTCAGTAATTTTATAAATCGA
* * * ** **
54293466 AGGCATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAGTAATTTTATAAATCGA
* * * *
54293520 GGGTATTTCAGTAATTTTGCAAA-CTGAGGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAACCAG-GGGTATTTCAGTAATTTTATAAATCGA
* *
54293574 GGATATTTGGGTAATTT
1 GGGTATTTCGGTAATTT
54293591 GGTAAACTAA
Statistics
Matches: 96, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
53 4 0.04
54 92 0.96
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAGTAATTTTATAAATCGA
Found at i:54293575 original size:27 final size:26
Alignment explanation
Indices: 54293439--54293590 Score: 106
Period size: 27 Copynumber: 5.7 Consensus size: 26
54293429 TACCCTACAG
** *
54293439 GGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTCAGTAATTTTACAAA-CGA
* * ** *
54293466 AGGCATTTTGGTAATTTTACAAACCA
1 GGGTATTTCAGTAATTTTACAAACGA
** ** *
54293492 GGGGTATTTTGGTAATTTTATTGATCGA
1 -GGGTATTTCAGTAATTTTA-CAAACGA
*
54293520 GGGTATTTCAGTAATTTTGCAAACTGA
1 GGGTATTTCAGTAATTTTACAAAC-GA
54293547 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAA-CGA
* **
54293574 GGATATTTGGGTAATTT
1 GGGTATTTCAGTAATTT
54293591 GGTAAACTAA
Statistics
Matches: 98, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
26 4 0.04
27 90 0.92
28 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTTACAAACGA
Found at i:54293581 original size:81 final size:81
Alignment explanation
Indices: 54293439--54293590 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
54293429 TACCCTACAG
* ** * *
54293439 GGGTATTTCAGTAATTTTGTAAACCAAAGGCATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTCAGTAATTTTGCAAACCAAAGGCATTTCAGTAATTTTACAAACCAGGGATATTTGGG
54293504 TAATTTTATTGATCGA
66 TAATTTTATTGATCGA
** * * *
54293520 GGGTATTTCAGTAATTTTGCAAACTGAGGGTATTTCAGTAATTTTACAAATC-GAGGATATTTGG
1 GGGTATTTCAGTAATTTTGCAAACCAAAGGCATTTCAGTAATTTTACAAACCAG-GGATATTTGG
54293584 GTAATTT
65 GTAATTT
54293591 GGTAAACTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 1 0.02
81 59 0.98
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTGCAAACCAAAGGCATTTCAGTAATTTTACAAACCAGGGATATTTGGG
TAATTTTATTGATCGA
Found at i:54300578 original size:39 final size:39
Alignment explanation
Indices: 54300451--54300575 Score: 151
Period size: 39 Copynumber: 3.2 Consensus size: 39
54300441 TATGAGATTG
* **
54300451 AAAATATCCAGACATGAGGTCCTTAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *
54300490 AAAATATCCGGACATGAGATCCGCAAGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * **
54300529 AATATATCTGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
54300568 AAAATATC
1 AAAATATC
54300576 TGGGTTAAAG
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:54304724 original size:14 final size:14
Alignment explanation
Indices: 54304705--54304733 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
54304695 AGTGGTCCGT
54304705 GAAATGCCAACAGA
1 GAAATGCCAACAGA
54304719 GAAATGCCAACAGA
1 GAAATGCCAACAGA
54304733 G
1 G
54304734 TTCGAGTAGT
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:0.48, C:0.21, G:0.24, T:0.07
Consensus pattern (14 bp):
GAAATGCCAACAGA
Found at i:54307687 original size:18 final size:18
Alignment explanation
Indices: 54307659--54307711 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
54307649 TTTTTGGGTT
54307659 GTATGGG-CCACATGGGC
1 GTATGGGCCCACATGGGC
* *
54307676 GTGTGGGCCCACATGAGC
1 GTATGGGCCCACATGGGC
54307694 GTATGGGCCCACATGGGC
1 GTATGGGCCCACATGGGC
54307712 TCGCATGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 6 0.19
18 25 0.81
ACGTcount: A:0.17, C:0.26, G:0.40, T:0.17
Consensus pattern (18 bp):
GTATGGGCCCACATGGGC
Found at i:54313515 original size:19 final size:19
Alignment explanation
Indices: 54313491--54313527 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
54313481 TTGTGTTGCA
54313491 TAAATGCATGCTTGCTTCC
1 TAAATGCATGCTTGCTTCC
54313510 TAAATGCATGCTTGCTTC
1 TAAATGCATGCTTGCTTC
54313528 AGTGGTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (19 bp):
TAAATGCATGCTTGCTTCC
Found at i:54319671 original size:28 final size:28
Alignment explanation
Indices: 54319614--54319677 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
54319604 TGGGAAGTAG
* *
54319614 TTGGGCCTGATGGGCCATATGAATCTGA
1 TTGGGCCTGATGGGCCATATCAATCAGA
*
54319642 TTGGGCCTGATGGGCCATGTCAA-CGAGA
1 TTGGGCCTGATGGGCCATATCAATC-AGA
54319670 TTGGGCCT
1 TTGGGCCT
54319678 AAAGGGGCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.19, C:0.20, G:0.34, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATCAATCAGA
Found at i:54320023 original size:27 final size:27
Alignment explanation
Indices: 54319993--54320413 Score: 497
Period size: 27 Copynumber: 15.7 Consensus size: 27
54319983 TAATAAAGAG
*
54319993 AAATTACCGAAACACCCTCAATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
* * *
54320020 AAATTATCGAAACACCCTTGA-TTGTG
1 AAATTACCGAAACACCCTCGATTTGTA
** * *
54320046 AAATTACTAAAATACCCTCGATTTGTG
1 AAATTACCGAAACACCCTCGATTTGTA
* *
54320073 AAATTATCGAAACACCTTCGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
* * * *
54320100 AAATTATCAAAACACCTTTGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
* * *
54320127 AAATTACCGAAACAGCCTCAAATTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
* * *
54320154 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
* *
54320181 AAATTATCAAAACACCCTCGATTTG-A
1 AAATTACCGAAACACCCTCGATTTGTA
* * * *
54320207 AAATTACCAAAATACACTCGATTTGTG
1 AAATTACCGAAACACCCTCGATTTGTA
*
54320234 AAATTACAGAAACACCCTCGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
* * *
54320261 AAATTACCGGAACACCTTTGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
*
54320288 AAATTACCGAAACACCCTCGACTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
54320315 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
*
54320342 AAATTACCGAAACACCCTCAATTTGTA
1 AAATTACCGAAACACCCTCGATTTGTA
*
54320369 AAATTACTGAAACACCC-CTGATTTGTA
1 AAATTACCGAAACACCCTC-GATTTGTA
* *
54320396 AAATTATCGAAATACCCT
1 AAATTACCGAAACACCCT
54320414 TGTAGTGTAA
Statistics
Matches: 333, Mismatches: 57, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
26 44 0.13
27 289 0.87
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAACACCCTCGATTTGTA
Found at i:54320258 original size:161 final size:161
Alignment explanation
Indices: 54319993--54320413 Score: 587
Period size: 161 Copynumber: 2.6 Consensus size: 161
54319983 TAATAAAGAG
* *
54319993 AAATTACCGAAACACCCTCAATTTGTAAAATTATCGAAACACCCTTGATTGTG-AAATTACTAAA
1 AAATTACCGAAACACCCTCAATTTGTAAAATTATCGAAACACCCTCGATT-TGAAAATTACCAAA
* * *
54320057 ATACCCTCGATTTGTGAAATTATCGAAACACCTTCGATTTGTAAAATTATCAAAACACCTTTGAT
65 ATACACTCGATTTGTGAAATTATCGAAACACCCTCGATTTGTAAAATTACCAAAACACCTTTGAT
*
54320122 TTGTAAAATTACCGAAACAGCCTCAAATTGTA
130 TTGTAAAATTACCGAAACACCCTCAAATTGTA
* * *
54320154 AAATTACTGAAATACCCTCAATTTGTAAAATTATCAAAACACCCTCGATTTGAAAATTACCAAAA
1 AAATTACCGAAACACCCTCAATTTGTAAAATTATCGAAACACCCTCGATTTGAAAATTACCAAAA
**
54320219 TACACTCGATTTGTGAAATTA-CAGAAACACCCTCGATTTGTAAAATTACCGGAACACCTTTGAT
66 TACACTCGATTTGTGAAATTATC-GAAACACCCTCGATTTGTAAAATTACCAAAACACCTTTGAT
* *
54320283 TTGTAAAATTACCGAAACACCCTCGACTTGTA
130 TTGTAAAATTACCGAAACACCCTCAAATTGTA
* * * **
54320315 AAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAATTACTGAA
1 AAATTACCGAAACACCCTCAATTTGTAAAATTATCGAAACACCCTCGATTTG-AAAATTACCAAA
* * * *
54320380 ACAC-CCCTGATTTGTAAAATTATCGAAATACCCT
65 ATACACTC-GATTTGTGAAATTATCGAAACACCCT
54320414 TGTAGTGTAA
Statistics
Matches: 230, Mismatches: 25, Indels: 9
0.87 0.09 0.03
Matches are distributed among these distances:
160 3 0.01
161 191 0.83
162 35 0.15
163 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (161 bp):
AAATTACCGAAACACCCTCAATTTGTAAAATTATCGAAACACCCTCGATTTGAAAATTACCAAAA
TACACTCGATTTGTGAAATTATCGAAACACCCTCGATTTGTAAAATTACCAAAACACCTTTGATT
TGTAAAATTACCGAAACACCCTCAAATTGTA
Found at i:54320422 original size:27 final size:27
Alignment explanation
Indices: 54320392--54320480 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
54320382 ACCCCTGATT
54320392 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* *
54320419 TGTAAAATT-TCTAAAATGCCCTTGTAG
1 TGTAAAATTATC-GAAATACCCTTGTAG
* * *
54320446 TGTAAAATGATCGACATACCCCTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
54320473 GGTAAAAT
1 TGTAAAAT
54320481 GACTGTTTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.04
27 48 0.92
28 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:54323396 original size:147 final size:147
Alignment explanation
Indices: 54323129--54323424 Score: 574
Period size: 147 Copynumber: 2.0 Consensus size: 147
54323119 ATAAGTAAAC
54323129 TATGTTATGTCTATGGTATTTATATATATGATTATGTTGCTATTTATTTGCATATGAACTTAGCT
1 TATGTTATGTCTATGGTATTTATATATATGATTATGTTGCTATTTATTTGCATATGAACTTAGCT
*
54323194 TTATGCTTACTCCCTTCTCTTTTTCATTTTCTTATAGTATCGCCAAGCTAGCTTGGGGATCGAAG
66 TTATGCTTACTCCCTTCTCTTTTTCATTTTCCTATAGTATCGCCAAGCTAGCTTGGGGATCGAAG
54323259 GACGTCAGAGGCTTCAT
131 GACGTCAGAGGCTTCAT
54323276 TATGTTATGTCTATGGTATTTATATATATGATTATGTTGCTATTTATTTGCATATGAACTTAGCT
1 TATGTTATGTCTATGGTATTTATATATATGATTATGTTGCTATTTATTTGCATATGAACTTAGCT
54323341 TTATGCTTACTCCCTTCTCTTTTTCATTTTCCTATAGTATCGCCAAGCTAGCTTGGGGATCGAAG
66 TTATGCTTACTCCCTTCTCTTTTTCATTTTCCTATAGTATCGCCAAGCTAGCTTGGGGATCGAAG
*
54323406 GACGTCGGAGGCTTCAT
131 GACGTCAGAGGCTTCAT
54323423 TA
1 TA
54323425 GACTATCAAT
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 147 1.00
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (147 bp):
TATGTTATGTCTATGGTATTTATATATATGATTATGTTGCTATTTATTTGCATATGAACTTAGCT
TTATGCTTACTCCCTTCTCTTTTTCATTTTCCTATAGTATCGCCAAGCTAGCTTGGGGATCGAAG
GACGTCAGAGGCTTCAT
Found at i:54327855 original size:71 final size:71
Alignment explanation
Indices: 54327769--54327932 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54327759 CGATTTGTCT
54327769 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54327834 CTTTCA
66 CTTTCA
54327840 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54327905 CTTTCA
66 CTTTCA
54327911 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
54327933 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:54327970 original size:71 final size:70
Alignment explanation
Indices: 54327769--54327966 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
54327759 CGATTTGTCT
* * * *
54327769 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54327834 CTTTCA
65 CTTTCA
* * * *
54327840 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54327905 CTTTCA
65 CTTTCA
* *
54327911 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
54327967 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:54334963 original size:71 final size:71
Alignment explanation
Indices: 54334877--54335040 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54334867 CGATTTGTCT
54334877 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54334942 CTTTCA
66 CTTTCA
54334948 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54335013 CTTTCA
66 CTTTCA
54335019 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
54335041 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:54335078 original size:71 final size:70
Alignment explanation
Indices: 54334877--54335074 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
54334867 CGATTTGTCT
* * * *
54334877 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54334942 CTTTCA
65 CTTTCA
* * * *
54334948 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
54335013 CTTTCA
65 CTTTCA
* *
54335019 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
54335075 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:54341221 original size:11 final size:11
Alignment explanation
Indices: 54341205--54341234 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
54341195 TGAGATAGAA
54341205 ATAATTATTTT
1 ATAATTATTTT
54341216 ATAATTATTTT
1 ATAATTATTTT
*
54341227 ATGATTAT
1 ATAATTAT
54341235 GATATGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (11 bp):
ATAATTATTTT
Found at i:54349497 original size:51 final size:52
Alignment explanation
Indices: 54349442--54349565 Score: 139
Period size: 51 Copynumber: 2.4 Consensus size: 52
54349432 CGATCACTTT
* *
54349442 TGTGGTACTAAGTGCAGGCCACTATGTGTAA-AAGATAGCTTTG-GT-CAAGAG
1 TGTGGTACTATGTGCAGGCCACTATGTG-AAGAAGATAGCTTTGACTACAA-AG
* * * *
54349493 TGTGGTACTATGTGAAGGGCACTTTGTGAAGAAGGTAGCTTTGACTACAAAG
1 TGTGGTACTATGTGCAGGCCACTATGTGAAGAAGATAGCTTTGACTACAAAG
*
54349545 -GTGGTGCTATGTGCAGGCCAC
1 TGTGGTACTATGTGCAGGCCAC
54349566 CGGGCTTCCG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
50 2 0.03
51 53 0.87
52 3 0.05
53 3 0.05
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (52 bp):
TGTGGTACTATGTGCAGGCCACTATGTGAAGAAGATAGCTTTGACTACAAAG
Found at i:54352970 original size:15 final size:13
Alignment explanation
Indices: 54352950--54353018 Score: 57
Period size: 15 Copynumber: 4.7 Consensus size: 13
54352940 ATCAGTCTGA
54352950 TTGGATTTTCTTGTT
1 TTGGA-TTTCTT-TT
54352965 TTGGATTTCTTTAT
1 TTGGATTTCTTT-T
54352979 GTTGGATTTCTATATT
1 -TTGGATTTCT-T-TT
54352995 TTGGATTTCTCTATT
1 TTGGATTTCT-T-TT
*
54353010 ATGGATTTC
1 TTGGATTTC
54353019 CTTATCTTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
13 1 0.02
14 7 0.15
15 37 0.77
16 2 0.04
17 1 0.02
ACGTcount: A:0.14, C:0.09, G:0.17, T:0.59
Consensus pattern (13 bp):
TTGGATTTCTTTT
Found at i:54352986 original size:30 final size:30
Alignment explanation
Indices: 54352950--54353017 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
54352940 ATCAGTCTGA
* *
54352950 TTGGATTTTCT-TGTTTTGGATTTCTTTAT
1 TTGGATTTTCTATATTTTGGATTTCTCTAT
54352979 GTTGGA-TTTCTATATTTTGGATTTCTCTAT
1 -TTGGATTTTCTATATTTTGGATTTCTCTAT
54353009 TATGGATTT
1 T-TGGATTT
54353018 CCTTATCTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 6 0.18
30 25 0.76
31 2 0.06
ACGTcount: A:0.15, C:0.07, G:0.18, T:0.60
Consensus pattern (30 bp):
TTGGATTTTCTATATTTTGGATTTCTCTAT
Found at i:54353633 original size:18 final size:18
Alignment explanation
Indices: 54353610--54353645 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
54353600 TATCCTCAAA
*
54353610 GCCCTATCAGGATCATCC
1 GCCCTATCAGGATAATCC
54353628 GCCCTATCAGGATAATCC
1 GCCCTATCAGGATAATCC
54353646 TTGTCTTTGA
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:0.25, C:0.36, G:0.17, T:0.22
Consensus pattern (18 bp):
GCCCTATCAGGATAATCC
Found at i:54356390 original size:42 final size:42
Alignment explanation
Indices: 54356326--54356495 Score: 250
Period size: 42 Copynumber: 4.0 Consensus size: 42
54356316 GTTACTCGGG
* *
54356326 AATCTCGCACACTAAATGCCAATGCGTAGCCGAAGCTAACTC
1 AATCTCGCACACTAAATGCCAATGCATAGCCGAAGCTATCTC
* * *
54356368 AATCACGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTT
1 AATCTCGCACACTAAATGCCAATGCATAGCCGAAGCTATCTC
*
54356410 GATCTCGCACACTAAATGCCAATGCATAGCCGAAGCTATCTC
1 AATCTCGCACACTAAATGCCAATGCATAGCCGAAGCTATCTC
* * * *
54356452 GATCTCGCACAGTAAGTGCCAATGCATAGCCAAAGCTATCTC
1 AATCTCGCACACTAAATGCCAATGCATAGCCGAAGCTATCTC
54356494 AA
1 AA
54356496 ATATTTTCGT
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 115 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (42 bp):
AATCTCGCACACTAAATGCCAATGCATAGCCGAAGCTATCTC
Found at i:54356468 original size:84 final size:84
Alignment explanation
Indices: 54356327--54356492 Score: 278
Period size: 84 Copynumber: 2.0 Consensus size: 84
54356317 TTACTCGGGA
*
54356327 ATCTCGCACACTAAATGCCAATGCGTAGCCGAAGCTAACTCAATCACGCACACTAAGTGCCAATG
1 ATCTCGCACACTAAATGCCAATGCATAGCCGAAGCTAACTCAATCACGCACACTAAGTGCCAATG
*
54356392 CATAGCCGAAGCTATCTTG
66 CATAGCCAAAGCTATCTTG
* * * *
54356411 ATCTCGCACACTAAATGCCAATGCATAGCCGAAGCTATCTCGATCTCGCACAGTAAGTGCCAATG
1 ATCTCGCACACTAAATGCCAATGCATAGCCGAAGCTAACTCAATCACGCACACTAAGTGCCAATG
54356476 CATAGCCAAAGCTATCT
66 CATAGCCAAAGCTATCT
54356493 CAAATATTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 76 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (84 bp):
ATCTCGCACACTAAATGCCAATGCATAGCCGAAGCTAACTCAATCACGCACACTAAGTGCCAATG
CATAGCCAAAGCTATCTTG
Found at i:54361216 original size:2 final size:2
Alignment explanation
Indices: 54361209--54361245 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
54361199 TTGATAGAAA
*
54361209 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
54361246 GTGGGTTCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:54361315 original size:29 final size:28
Alignment explanation
Indices: 54361281--54361355 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 28
54361271 TAATCAACCA
*
54361281 CGCACACTTAGTGCCATGTACTTT-AAAC
1 CGCACACTTAGTGCCATGCA-TTTCAAAC
*
54361309 TCGCACACTTAGTGCCATGCATTTCAAGC
1 -CGCACACTTAGTGCCATGCATTTCAAAC
54361338 CAGCACACTTAGTGCCAT
1 C-GCACACTTAGTGCCAT
54361356 TCTCTCAACC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 4 0.10
29 38 0.90
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGCATTTCAAAC
Found at i:54361908 original size:2 final size:2
Alignment explanation
Indices: 54361901--54361929 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
54361891 ATATGCATAC
54361901 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54361930 CAACTATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:54372828 original size:42 final size:42
Alignment explanation
Indices: 54372782--54372878 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
54372772 CCAACTATGA
* * ** *
54372782 TCTTACACGAAGTCTCACATCAATGCCATGTCCCAAACATGG
1 TCTTACACGAAATCACACATCAATGCCACATCCCAAACACGG
* * * *
54372824 TCTTATACGAAATCACATATCGATGCCGCATCCCAAACACGG
1 TCTTACACGAAATCACACATCAATGCCACATCCCAAACACGG
*
54372866 TGTTACACGAAAT
1 TCTTACACGAAAT
54372879 TTCATACCGA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (42 bp):
TCTTACACGAAATCACACATCAATGCCACATCCCAAACACGG
Found at i:54373010 original size:37 final size:37
Alignment explanation
Indices: 54372928--54373140 Score: 313
Period size: 37 Copynumber: 5.8 Consensus size: 37
54372918 GATCTCATAT
* * *
54372928 CGATGCCCTATCCCAGAC-ATGGTCTTACACGT-ATCA
1 CGATGCCATAGCCCAG-CTATGGTCTTACATGTCATCA
*
54372964 CAATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
* *
54373001 CGATGCCATAGCCCAGCTATGGTCTTACATGTTATTA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
*
54373038 CTATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
* *
54373075 CGATGCCATAGCCCAGCTATGGTCTTACATGTTATTA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
*
54373112 CTATGCCATAGCCCAGCTATGGTCTTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACA
54373141 CGTACTCACA
Statistics
Matches: 161, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
35 1 0.01
36 26 0.16
37 134 0.83
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (37 bp):
CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
Found at i:54373062 original size:74 final size:74
Alignment explanation
Indices: 54372928--54373140 Score: 358
Period size: 74 Copynumber: 2.9 Consensus size: 74
54372918 GATCTCATAT
* * * * *
54372928 CGATGCCCTATCCCAGAC-ATGGTCTTACACG-TATCACAATGCCATAGCCCAGCTATGGTCTTA
1 CGATGCCATAGCCCAG-CTATGGTCTTACATGTTATTACTATGCCATAGCCCAGCTATGGTCTTA
54372991 CATGTCATCA
65 CATGTCATCA
54373001 CGATGCCATAGCCCAGCTATGGTCTTACATGTTATTACTATGCCATAGCCCAGCTATGGTCTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTTATTACTATGCCATAGCCCAGCTATGGTCTTAC
54373066 ATGTCATCA
66 ATGTCATCA
54373075 CGATGCCATAGCCCAGCTATGGTCTTACATGTTATTACTATGCCATAGCCCAGCTATGGTCTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTTATTACTATGCCATAGCCCAGCTATGGTCTTAC
54373140 A
66 A
54373141 CGTACTCACA
Statistics
Matches: 133, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
72 1 0.01
73 26 0.20
74 106 0.80
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (74 bp):
CGATGCCATAGCCCAGCTATGGTCTTACATGTTATTACTATGCCATAGCCCAGCTATGGTCTTAC
ATGTCATCA
Found at i:54375206 original size:32 final size:32
Alignment explanation
Indices: 54375165--54375231 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
54375155 TACTCAATTG
*
54375165 AATTTTCGTACATACCTGTACCATCTCGTACC
1 AATTTTCGTACATACCTATACCATCTCGTACC
54375197 AATTTTCGTACATACCTATACCATCTCGTACC
1 AATTTTCGTACATACCTATACCATCTCGTACC
54375229 AAT
1 AAT
54375232 CTCATACTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.34
Consensus pattern (32 bp):
AATTTTCGTACATACCTATACCATCTCGTACC
Found at i:54375361 original size:42 final size:42
Alignment explanation
Indices: 54375297--54375418 Score: 181
Period size: 42 Copynumber: 2.9 Consensus size: 42
54375287 TTACTTGGGA
* * * * **
54375297 ATCTTGCACACTAAGTGCCAATGCGTTGCCGGAGCTATCTTG
1 ATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCCCG
54375339 ATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCCCG
1 ATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCCCG
*
54375381 ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTAT
1 ATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTAT
54375419 ATCAAATATT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (42 bp):
ATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCCCG
Found at i:54377713 original size:51 final size:51
Alignment explanation
Indices: 54377592--54377779 Score: 189
Period size: 51 Copynumber: 3.7 Consensus size: 51
54377582 TTGATTTTAT
* * * *
54377592 GTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACTAGAT-GGTTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGATAGCTTAG
* * ** *
54377642 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGATAGCTTAG
* * * * *
54377693 ATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGATAGCTTAG
* * * * * *
54377744 GTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTG
54377780 AAAAAGGTAG
Statistics
Matches: 115, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 38 0.33
51 77 0.67
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGATAGCTTAG
Found at i:54377785 original size:51 final size:51
Alignment explanation
Indices: 54377683--54377824 Score: 160
Period size: 51 Copynumber: 2.8 Consensus size: 51
54377673 ATGCGTACCC
* * * * * *
54377683 GATAGCTTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAA
1 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTATGTGAAAAA
*
54377734 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAAAA
1 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTATGTGAAAAA
* * * * *
54377785 GGTAGCTTT-GACTATAAGGGTGGTACTATGTGTAGGCCAC
1 GATAGCTTTGGTC-ACAAGTGTGGTACTATGTGAAGGCCAC
54377825 CGGGCATTTG
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 2 0.03
51 76 0.97
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (51 bp):
GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTATGTGAAAAA
Found at i:54380870 original size:40 final size:40
Alignment explanation
Indices: 54380793--54381013 Score: 315
Period size: 40 Copynumber: 5.6 Consensus size: 40
54380783 AAGCCAAGTA
** * *
54380793 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAATTG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAATTG
54380832 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
54380872 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
*
54380912 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
* * * *
54380952 CCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAATTG
54380991 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
54381014 CATCCTAATA
Statistics
Matches: 168, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.01
39 47 0.28
40 119 0.71
41 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
Found at i:54381004 original size:119 final size:119
Alignment explanation
Indices: 54380793--54381013 Score: 313
Period size: 119 Copynumber: 1.9 Consensus size: 119
54380783 AAGCCAAGTA
** * * *
54380793 CCTTCGGGGTTTAGCCGGATATAGCTACTCGCTCAATTGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGGACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* *
54380858 AACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
*
54380912 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGGACTTAG-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
54380974 AGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
54381014 CATCCTAATA
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
118 1 0.01
119 61 0.68
120 28 0.31
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (119 bp):
CCTTCGGGACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
Found at i:54385402 original size:47 final size:47
Alignment explanation
Indices: 54385350--54385519 Score: 263
Period size: 47 Copynumber: 3.6 Consensus size: 47
54385340 TTAGGATTTT
*
54385350 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
54385397 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54385444 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAG-ATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
54385490 ATGTGATGAACGTGAA-AGTGTATATATGTG
1 ATGTGATGAATGTGAACA-TGCATATATGTG
54385520 GCGAAGCCGA
Statistics
Matches: 114, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
45 1 0.01
46 33 0.29
47 80 0.70
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:54385403 original size:22 final size:22
Alignment explanation
Indices: 54385375--54385450 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
54385365 ACATGCATAT
54385375 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
54385397 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
54385419 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
54385444 ATGTGAT
1 ATGTGAT
54385451 GAATGTGAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:54385597 original size:46 final size:46
Alignment explanation
Indices: 54385513--54385601 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
54385503 GAAAGTGTAT
* * *
54385513 ATATGTGGCGAAGCCGAATGGCTAATGCGAAACGTGTATGAGACGG
1 ATATGTGGCAAAGCCAAATGGCTAATGCGAAACATGTATGAGACGG
* * * *
54385559 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGA
1 ATATGTGGCAAAGCCAAATGGCTAATGCGAAACATGTATGAGA
54385602 TGTGTATATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGTGGCAAAGCCAAATGGCTAATGCGAAACATGTATGAGACGG
Found at i:54385805 original size:37 final size:37
Alignment explanation
Indices: 54385755--54385862 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
54385745 GGAAATATAT
54385755 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
54385792 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
54385829 TCCAGGTAAGACCCGATGACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
54385863 TCGTCTGAGC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:54392987 original size:40 final size:40
Alignment explanation
Indices: 54392910--54393130 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
54392900 AAGCCAAGTA
** * *
54392910 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAATTG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAATTG
*
54392949 CCTTCGAGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
54392989 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
*
54393029 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
* * * * *
54393069 CCTTCGGG-CTTAGCCTGG-AATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAATTG
54393108 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
54393131 CATCCGAATA
Statistics
Matches: 164, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 45 0.27
40 117 0.71
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
Found at i:54393121 original size:119 final size:119
Alignment explanation
Indices: 54392910--54393130 Score: 295
Period size: 119 Copynumber: 1.9 Consensus size: 119
54392900 AAGCCAAGTA
** * * *
54392910 CCTTCGGGGTTTAGCCGGATATAGCTACTCGCTCAATTGCCTTCGAGACTTAGCCCGGTTATAGT
1 CCTTCGGGACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGT
* *
54392975 AACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
* * *
54393029 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATGCCTTCG-GGCTTAGCCTGGA-ATT
1 CCTTCGGGACTTAG-CCGGATATAGCT-ACTCGCACAAATGCCTTCGAGACTTAGCCCGGATA-T
*
54393091 AGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
54393131 CATCCGAATA
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 1 0.01
119 61 0.69
120 26 0.30
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (119 bp):
CCTTCGGGACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
Found at i:54399892 original size:22 final size:20
Alignment explanation
Indices: 54399844--54399892 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
54399834 ATTTCACTAC
*
54399844 TCAAATCCATATCCAAAACA
1 TCAAATCAATATCCAAAACA
54399864 TACCAAATCAATATGCCAAAATCA
1 T--CAAATCAATAT-CCAAAA-CA
54399888 TCAAA
1 TCAAA
54399893 CTTACATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
22 14 0.58
23 6 0.25
24 3 0.12
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (20 bp):
TCAAATCAATATCCAAAACA
Found at i:54405708 original size:93 final size:93
Alignment explanation
Indices: 54405596--54405767 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
54405586 GCCCATAAGT
* *
54405596 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54405661 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
54405689 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
54405754 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
54405768 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:54405763 original size:46 final size:46
Alignment explanation
Indices: 54405588--54405763 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
54405578 TGTAACCCGC
* *
54405588 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
54405634 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
54405680 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
54405727 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
54405764 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:54408182 original size:30 final size:30
Alignment explanation
Indices: 54408138--54408226 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
54408128 CAAAGATAAT
54408138 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
54408167 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
54408197 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
54408227 CGATATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:54408186 original size:15 final size:15
Alignment explanation
Indices: 54408138--54408217 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
54408128 CAAAGATAAT
*
54408138 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
54408152 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
54408167 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
54408182 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
54408197 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
54408212 AAGAAA
1 AAGAAA
54408218 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:54408226 original size:15 final size:15
Alignment explanation
Indices: 54408149--54408226 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
54408139 AGAAAACCGA
54408149 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
54408164 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
54408178 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
54408193 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
54408209 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
54408224 ATA
1 ATA
54408227 CGATATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:54411221 original size:46 final size:46
Alignment explanation
Indices: 54411154--54411331 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
54411144 TGTAACCCGC
*
54411154 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * *
54411200 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * **
54411246 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* *
54411293 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
54411332 CCCAAACATC
Statistics
Matches: 108, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
46 73 0.68
47 35 0.32
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:54411274 original size:93 final size:93
Alignment explanation
Indices: 54411162--54411333 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
54411152 GCCCATAAGT
*** *
54411162 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
54411227 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
54411255 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
54411320 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
54411334 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:54419403 original size:21 final size:21
Alignment explanation
Indices: 54419374--54419429 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
54419364 CAAACCAGAC
*
54419374 AGGGGCACACGCCCGTGTGAA
1 AGGGCCACACGCCCGTGTGAA
54419395 AGGGCCACACGCCCGTGTGAA
1 AGGGCCACACGCCCGTGTGAA
54419416 AGGGCCACACGCCC
1 AGGGCCACACGCCC
54419430 ATGCGTCTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.23, C:0.36, G:0.34, T:0.07
Consensus pattern (21 bp):
AGGGCCACACGCCCGTGTGAA
Found at i:54420729 original size:48 final size:48
Alignment explanation
Indices: 54420654--54421174 Score: 415
Period size: 48 Copynumber: 10.9 Consensus size: 48
54420644 GGTAAAATGT
* * * *
54420654 CGATGCCATG-TCCTAGACATGGTCTTACACTGGCTCACTTGTTGAGGC
1 CGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCACATATCGAGGC
* * * * * *
54420702 CGACGCCATGTGCCAGACATGGTCTTACACTAGCTCTCATCTCAATGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGAGGC
* * * * *
54420750 TGATGCCATGTTTCAAACATGGTCTTACACTGGCTCATATATCGAGGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGAGGC
* * * * * * *
54420798 CAATGCCATG-TCCTAGATATCGTCTTACACTAGCTCTCATCTCAATGC
1 CGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCACATATCGAGGC
* * * *
54420846 CGATGCCATGTTCCAAACATGATCTTACAGTGGCTCACATATCGAGGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGAGGC
* * * * * * *
54420894 CGATGCCATGTACTAGACATGGTCTTACACTAGCTCTCGTCTCAAGGT
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGAGGC
* * * *
54420942 CGATGCCATGTTTCAAACATGGTCTTATACT-GCCTCACTTATCGAGGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAG-CTCACATATCGAGGC
* * * * * * * *
54420990 TGATTCCATGTCCCAGACATGGTTTTACTCTAGCTCTA-ATCTCAATGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTC-ACATATCGAGGC
* ** *
54421038 CGATGCCATGTTCCAAACATAATCTTACACTAGCTCACATATTGAGGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGAGGC
* * * * ** *
54421086 CGATGCCATGTCCCAGACATGGTATTACACTAGCTCTA-GTCTTAATGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTC-ACATATCGAGGC
* * *
54421134 CGATGCCATGCTACAAACATGGTCTTACACT-GTCTCACATA
1 CGATGCCATGTTCCAGACATGGTCTTACACTAG-CTCACATA
54421175 CCCCTAGTAG
Statistics
Matches: 359, Mismatches: 104, Indels: 20
0.74 0.22 0.04
Matches are distributed among these distances:
47 6 0.02
48 345 0.96
49 8 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCGAGGC
Found at i:54421171 original size:96 final size:95
Alignment explanation
Indices: 54420649--54421174 Score: 649
Period size: 96 Copynumber: 5.5 Consensus size: 95
54420639 AAGAGGGTAA
* * * * * *
54420649 AATGTCGATGCCATG-TCCTAGACATGGTCTTACACTGGCTCACTTGTTGAGGCCGACGCCATGT
1 AATGCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGT
*
54420713 GCCAGACATGGTCTTACACTAGCTCTCATCTC
65 CCCAGACATGGTCTTACACTAGCTCT-ATCTC
* * * *
54420745 AATGCTGATGCCATGTTTCAAACATGGTCTTACACTGGCTCATATATCGAGGCCAATGCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTC
* * *
54420810 CTAGATATCGTCTTACACTAGCTCTCATCTC
66 CCAGACATGGTCTTACACTAGCTCT-ATCTC
* * *
54420841 AATGCCGATGCCATGTTCCAAACATGATCTTACAGTGGCTCACATATCGAGGCCGATGCCATGTA
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTC
* *
54420906 CTAGACATGGTCTTACACTAGCTCTCGTCTC
66 CCAGACATGGTCTTACACTAGCTCT-ATCTC
* * * * * * * *
54420937 AAGGTCGATGCCATGTTTCAAACATGGTCTTATACTGCCTCACTTATCGAGGCTGATTCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTC
* *
54421002 CCAGACATGGTTTTACTCTAGCTCTAATCTC
66 CCAGACATGGTCTTACACTAGCTCT-ATCTC
** * *
54421033 AATGCCGATGCCATGTTCCAAACATAATCTTACACTAGCTCACATATTGAGGCCGATGCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTC
* *
54421098 CCAGACATGGTATTACACTAGCTCTAGTCTT
66 CCAGACATGGTCTTACACTAGCTCTA-TCTC
* * *
54421129 AATGCCGATGCCATGCTACAAACATGGTCTTACACTGTCTCACATA
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
54421175 CCCCTAGTAG
Statistics
Matches: 367, Mismatches: 61, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
95 1 0.00
96 364 0.99
97 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (95 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTC
CCAGACATGGTCTTACACTAGCTCTATCTC
Found at i:54435616 original size:16 final size:16
Alignment explanation
Indices: 54435595--54435625 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54435585 AAAATGATAT
54435595 ATGTTTTCAAAACATC
1 ATGTTTTCAAAACATC
*
54435611 ATGTTTTCACAACAT
1 ATGTTTTCAAAACAT
54435626 TGTTGAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (16 bp):
ATGTTTTCAAAACATC
Found at i:54440133 original size:29 final size:29
Alignment explanation
Indices: 54440091--54440189 Score: 198
Period size: 29 Copynumber: 3.4 Consensus size: 29
54440081 GACGAGATTA
54440091 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
54440120 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
54440149 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
54440178 GCACTAAGTGTG
1 GCACTAAGTGTG
54440190 TGAGCTCGAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:54440207 original size:58 final size:58
Alignment explanation
Indices: 54440091--54440248 Score: 194
Period size: 58 Copynumber: 2.7 Consensus size: 58
54440081 GACGAGATTA
* *
54440091 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATG
* * *
54440149 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGTGA-GCTCGAAGGGTATG
1 GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTG-CATGCTCGAAAGATATG
* * * **
54440207 GCACTATGTGTGCAGGCT-TAAATCGCATGGCACTAAGTGTGC
1 GCACTAAGTGTGCATGCTGGAAAT-ATATGGCACTAAGTGTGC
54440249 GAAATCGAGT
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
57 4 0.05
58 82 0.94
59 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (58 bp):
GCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATG
Found at i:54447598 original size:29 final size:29
Alignment explanation
Indices: 54447556--54447655 Score: 200
Period size: 29 Copynumber: 3.4 Consensus size: 29
54447546 GACGAGATTA
54447556 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
54447585 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
54447614 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
54447643 GCACTAAGTGTGC
1 GCACTAAGTGTGC
54447656 GAGCTCGAAG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:54447671 original size:29 final size:30
Alignment explanation
Indices: 54447556--54447715 Score: 188
Period size: 29 Copynumber: 5.5 Consensus size: 30
54447546 GACGAGATTA
54447556 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
54447585 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
54447614 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
* ***
54447643 GCACTAAGTGTGCGA-GCTCGAAGGGTATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
* * * **
54447672 GCACTATGTGTGCG-GGCT-TAAATCGCATG
1 GCACTAAGTGTGCGATGCTGGAAAT-ATATG
54447701 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
54447716 AATCGAGTAT
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
28 2 0.02
29 114 0.97
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (30 bp):
GCACTAAGTGTGCGATGCTGGAAATATATG
Found at i:54451958 original size:25 final size:24
Alignment explanation
Indices: 54451924--54451972 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
54451914 TTGATACTCC
*
54451924 AAATACCAATTCATA-ACAAGCATAT
1 AAATAACAATT-ATACACAA-CATAT
54451949 AAATAACAATTATACACAACATAT
1 AAATAACAATTATACACAACATAT
54451973 CCAAAGGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.55, C:0.18, G:0.02, T:0.24
Consensus pattern (24 bp):
AAATAACAATTATACACAACATAT
Found at i:54453605 original size:13 final size:14
Alignment explanation
Indices: 54453577--54453607 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
54453567 CCATGTTATT
54453577 TTTATTTTACTTAA
1 TTTATTTTACTTAA
54453591 TTTATTTTA-TTAA
1 TTTATTTTACTTAA
54453604 TTTA
1 TTTA
54453608 CACTTTTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTATTTTACTTAA
Found at i:54455674 original size:43 final size:43
Alignment explanation
Indices: 54455647--54455829 Score: 233
Period size: 43 Copynumber: 4.3 Consensus size: 43
54455637 TTTGTTGGAA
* * *
54455647 AAGCACCGTTAAAAGTCATGGCCTTTAGCGGCATTTGTGAGGG
1 AAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCATTTGTGGGGG
* ** *
54455690 AAGCGCCGGTAAAAGTCACAGCTTTTAGCGGCATTTGTGGGGG
1 AAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCATTTGTGGGGG
* *
54455733 AAGCGTCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGTGGGGG
1 AAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCATTTGTGGGGG
* ** *
54455776 AATCGCCGCTAAAAGTCATGGCCTTTAGCGGTGTATGT-GGGG
1 AAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCATTTGTGGGGG
*
54455818 AAGTGCCGCTAA
1 AAGCGCCGCTAA
54455830 TTTTGGCTGA
Statistics
Matches: 122, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
42 14 0.11
43 108 0.89
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (43 bp):
AAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCATTTGTGGGGG
Found at i:54455919 original size:31 final size:31
Alignment explanation
Indices: 54455884--54455944 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
54455874 TTCCTACATT
54455884 AAATCCAACCAAAAACA-ACAAATATAGCATG
1 AAATCCAACCAAAAACAGA-AAATATAGCATG
*
54455915 AAATCCAACCAAAAACAGAAAATGTAGCAT
1 AAATCCAACCAAAAACAGAAAATATAGCAT
54455945 AAAAAATACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.57, C:0.21, G:0.08, T:0.13
Consensus pattern (31 bp):
AAATCCAACCAAAAACAGAAAATATAGCATG
Found at i:54456217 original size:21 final size:21
Alignment explanation
Indices: 54456192--54456231 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
54456182 TTCTGCTCTA
54456192 CTCTG-CTGCCATCGCTGCTTC
1 CTCTGCCT-CCATCGCTGCTTC
*
54456213 CTCTGCCTCCCTCGCTGCT
1 CTCTGCCTCCATCGCTGCT
54456232 GTATCCGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.03, C:0.47, G:0.17, T:0.33
Consensus pattern (21 bp):
CTCTGCCTCCATCGCTGCTTC
Found at i:54461541 original size:9 final size:9
Alignment explanation
Indices: 54461527--54461687 Score: 93
Period size: 9 Copynumber: 18.3 Consensus size: 9
54461517 TATGTATTAC
*
54461527 GTAAGTTAA
1 GTAAGTTAT
*
54461536 GTAAGTTTT
1 GTAAGTTAT
54461545 GTAAGTTAT
1 GTAAGTTAT
54461554 GTAAGTTAT
1 GTAAGTTAT
* *
54461563 GTTA-TGAT
1 GTAAGTTAT
* *
54461571 ATACATTTAT
1 GTA-AGTTAT
* *
54461581 GTGAGGTAT
1 GTAAGTTAT
54461590 GTAAGTTAT
1 GTAAGTTAT
* *
54461599 GATATGATAT
1 G-TAAGTTAT
* *
54461609 -AAATTTAT
1 GTAAGTTAT
54461617 GT-A-TTAT
1 GTAAGTTAT
54461624 GTAAGTTAT
1 GTAAGTTAT
54461633 GTAAGTTAT
1 GTAAGTTAT
* *
54461642 GATATGATAT
1 G-TAAGTTAT
* *
54461652 AT-ATTTAT
1 GTAAGTTAT
54461660 GT-A-TTAT
1 GTAAGTTAT
*
54461667 GTAAGTTTT
1 GTAAGTTAT
54461676 GTAAGTTAT
1 GTAAGTTAT
54461685 GTA
1 GTA
54461688 TTATGATATA
Statistics
Matches: 113, Mismatches: 30, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
7 12 0.11
8 16 0.14
9 69 0.61
10 16 0.14
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:54461598 original size:36 final size:34
Alignment explanation
Indices: 54461551--54461634 Score: 123
Period size: 36 Copynumber: 2.4 Consensus size: 34
54461541 TTTTGTAAGT
*
54461551 TATGTAAGTTATGTTATGATATACATTTATGTGAGG
1 TATGTAAGTTATGTTATGATATAAATTTATGT-A-G
* *
54461587 TATGTAAGTTATGATATGATATAAATTTATGTAT
1 TATGTAAGTTATGTTATGATATAAATTTATGTAG
54461621 TATGTAAGTTATGT
1 TATGTAAGTTATGT
54461635 AAGTTATGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 13 0.30
35 1 0.02
36 30 0.68
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.46
Consensus pattern (34 bp):
TATGTAAGTTATGTTATGATATAAATTTATGTAG
Found at i:54461634 original size:43 final size:43
Alignment explanation
Indices: 54461577--54461707 Score: 208
Period size: 43 Copynumber: 3.0 Consensus size: 43
54461567 TGATATACAT
* * *
54461577 TTATGTGAGGTATGTAAGTTATGATATGATATAAATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
54461620 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
*
54461663 TTATGTAAGTTTTGTAAGTTATGTATTATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATG-A-TATGATATATATTTATGTA
54461708 AGTTATTATA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
43 62 0.76
44 1 0.01
45 19 0.23
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:54465069 original size:22 final size:21
Alignment explanation
Indices: 54465043--54465153 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 21
54465033 GGGTTATGGT
*
54465043 TTTATG-TTTGGAGTTTTAAGGG
1 TTTATGATTT-GAGATTT-AGGG
54465065 TTTATGATTTGAGATTTAGGG
1 TTTATGATTTGAGATTTAGGG
* * * **
54465086 TTTAAGGTGT-AGGGTTAGGG
1 TTTATGATTTGAGATTTAGGG
54465106 TTTATTG-TTTAGAGTAATTTTAAGGG
1 TTTA-TGATTT-GAG--A-TTT-AGGG
54465132 TTTATGATTTGAGATTTAGGG
1 TTTATGATTTGAGATTTAGGG
54465153 T
1 T
54465154 CTGGTGTTGA
Statistics
Matches: 70, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
20 14 0.20
21 17 0.24
22 17 0.24
23 4 0.06
25 7 0.10
26 11 0.16
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.47
Consensus pattern (21 bp):
TTTATGATTTGAGATTTAGGG
Found at i:54466333 original size:27 final size:28
Alignment explanation
Indices: 54466296--54466355 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
54466286 AGCATGGCTG
54466296 CCAG-AACAGATA-TTGTGACAGAGCCA
1 CCAGAAACAGATATTTGTGACAGAGCCA
*
54466322 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATATTTGTGACAGAGCCA
54466350 CCAGAA
1 CCAGAA
54466356 CGCTTCCTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 4 0.13
27 8 0.26
28 19 0.61
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGACAGAGCCA
Found at i:54472462 original size:27 final size:27
Alignment explanation
Indices: 54472426--54472619 Score: 185
Period size: 27 Copynumber: 7.2 Consensus size: 27
54472416 TTACTAAATG
* *
54472426 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCAATTTATAGAATTACCATTTTA
* *
54472453 CCCTCAATTTATAGAATTACCGTTTCA
1 CCCTCAATTTATAGAATTACCATTTTA
* * * *
54472480 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCAATTTATAGAATTACCATTTTA
* **
54472507 CCCTCGATTTATAGAATTATAATTTTA
1 CCCTCAATTTATAGAATTACCATTTTA
**
54472534 CCCTCGAA-TTATAGAATTACTGTTTTA
1 CCCTC-AATTTATAGAATTACCATTTTA
* * *
54472561 CCCTCGAA-TTACAAAATTACTATTTTA
1 CCCTC-AATTTATAGAATTACCATTTTA
* * *
54472588 CCCTCAGTTTAAAAAATTACCATTTTA
1 CCCTCAATTTATAGAATTACCATTTTA
54472615 CCCTC
1 CCCTC
54472620 GGTTGTGAAA
Statistics
Matches: 142, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 140 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCAATTTATAGAATTACCATTTTA
Found at i:54472522 original size:81 final size:81
Alignment explanation
Indices: 54472426--54472620 Score: 268
Period size: 81 Copynumber: 2.4 Consensus size: 81
54472416 TTACTAAATG
* *
54472426 CCCTCGATTTGTAGAATTACCATTTTACCCTC-AATTTATAGAATTACCGTTTCACCCTCGATTT
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGAA-TTATAGAATTACCGTTTCACCCTCGAATT
*
54472490 ACAAAATTACCGTTTTA
65 ACAAAATTACCATTTTA
** * *
54472507 CCCTCGATTTATAGAATTATAATTTTACCCTCGAATTATAGAATTACTGTTTTACCCTCGAATTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGAATTATAGAATTACCGTTTCACCCTCGAATTA
*
54472572 CAAAATTACTATTTTA
66 CAAAATTACCATTTTA
* *
54472588 CCCTC-AGTTTAAAAAATTACCATTTTACCCTCG
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCG
54472621 GTTGTGAAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
80 1 0.01
81 97 0.97
82 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGAATTATAGAATTACCGTTTCACCCTCGAATTA
CAAAATTACCATTTTA
Found at i:54472685 original size:27 final size:28
Alignment explanation
Indices: 54472655--54472725 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
54472645 TGTAAGATAG
**
54472655 AATTATCGAAATACCCTC-AATTTGTAA
1 AATTATCGAAATACCCTCTAATTTCCAA
* *
54472682 AATTACCAAAATACCC-CTAATTTCCAA
1 AATTATCGAAATACCCTCTAATTTCCAA
*
54472709 AATTATAGAAATACCCT
1 AATTATCGAAATACCCT
54472726 TGACTTTCTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.30
Consensus pattern (28 bp):
AATTATCGAAATACCCTCTAATTTCCAA
Found at i:54472871 original size:27 final size:27
Alignment explanation
Indices: 54472828--54472901 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
54472818 AAATGACTAA
*
54472828 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
54472855 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
54472882 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
54472902 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:54472905 original size:27 final size:27
Alignment explanation
Indices: 54472841--54472905 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
54472831 ACCCCTAATA
*
54472841 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
54472868 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
54472895 GGTAAAATGAC
1 GGTAAAATGAC
54472906 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:54473798 original size:24 final size:25
Alignment explanation
Indices: 54473717--54473785 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
54473707 GGAAGTGCTA
* * *
54473717 AAAGGGCTCTGCCCCAGTTTACCGG
1 AAAGGGCTTTGCCCCAGTTTATCAG
54473742 AAAGGGCTTTGCCCCAGTTTATCAG
1 AAAGGGCTTTGCCCCAGTTTATCAG
54473767 AAAGGGCTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
54473786 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.25
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATCAG
Found at i:54473996 original size:42 final size:42
Alignment explanation
Indices: 54473931--54474022 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
54473921 TAGTCTCCCC
54473931 AAATGGGCTTGCATACAATCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACAATCATTGACATTACATGTGATATTG
54473973 AAATGGGCTTGCATAC-ATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACAAT-CATTGACATTACATGTGATATTG
54474015 AAATGGGC
1 AAATGGGC
54474023 CTAAAGGCCA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 2 0.04
42 47 0.96
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (42 bp):
AAATGGGCTTGCATACAATCATTGACATTACATGTGATATTG
Found at i:54474083 original size:31 final size:31
Alignment explanation
Indices: 54474048--54474160 Score: 192
Period size: 31 Copynumber: 3.7 Consensus size: 31
54474038 TTTACAGTAT
*
54474048 AGGCTTTGGCCCAGTGATATGATTTATGAAA
1 AGGCTTCGGCCCAGTGATATGATTTATGAAA
*
54474079 AGGCTTCGGCCTAGTGATATGATTTATGAAA
1 AGGCTTCGGCCCAGTGATATGATTTATGAAA
*
54474110 AGGCTTCGGCCCAGTGATATGATTTATGGAA
1 AGGCTTCGGCCCAGTGATATGATTTATGAAA
54474141 AGGCTTCGGCCCAGT-ATATG
1 AGGCTTCGGCCCAGTGATATG
54474161 CCAAGACTAA
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 73 0.94
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (31 bp):
AGGCTTCGGCCCAGTGATATGATTTATGAAA
Found at i:54474910 original size:13 final size:13
Alignment explanation
Indices: 54474892--54474917 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54474882 AAGATTTTTT
54474892 TTAACTAAACTAA
1 TTAACTAAACTAA
54474905 TTAACTAAACTAA
1 TTAACTAAACTAA
54474918 GAATGTACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:54475881 original size:17 final size:17
Alignment explanation
Indices: 54475859--54475893 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
54475849 TTTCGGCCAG
54475859 TTTCTCGCTCTTTTTAC
1 TTTCTCGCTCTTTTTAC
54475876 TTTCTCGCTCTTTTTAC
1 TTTCTCGCTCTTTTTAC
54475893 T
1 T
54475894 CTCCCTTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.06, C:0.29, G:0.06, T:0.60
Consensus pattern (17 bp):
TTTCTCGCTCTTTTTAC
Found at i:54492357 original size:18 final size:19
Alignment explanation
Indices: 54492334--54492374 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
54492324 AGACCCTATT
*
54492334 TCTCACTTATCCATCA-TC
1 TCTCACTCATCCATCATTC
*
54492352 TCTCACTCATTCATCATTC
1 TCTCACTCATCCATCATTC
54492371 TCTC
1 TCTC
54492375 CTCTCTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (19 bp):
TCTCACTCATCCATCATTC
Found at i:54499323 original size:47 final size:45
Alignment explanation
Indices: 54499151--54499373 Score: 161
Period size: 46 Copynumber: 4.8 Consensus size: 45
54499141 GGGTTATTTG
* * *
54499151 TGTGCCAGTGTAAGACATGTCTAGGACATGCATCTGCC-ACATTATGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTA-A-GA-GA
* * * * * * *
54499198 -GAGCCGGTGTAAGACCATGTCTGGGACATGGTAACGACATTGAGACGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTAAGA-GA
* *
54499246 -GAGCTAGTGTAAGACATGTC-GGGACATGCATCGGCCTCAAGA-A
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-AAGAGA
* *
54499289 TGTAAGCCAGTGTAAGACAAGTCTGGGACATGCATCGG-CTACGAGA
1 TGT--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAAGAGA
*
54499335 TGTGTCAGTGTAAGATCATGTCTGGGACATGGCATCGGC
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
54499374 ATGGATATGT
Statistics
Matches: 139, Mismatches: 24, Indels: 26
0.74 0.13 0.14
Matches are distributed among these distances:
43 1 0.01
44 13 0.09
45 24 0.17
46 48 0.35
47 33 0.24
48 19 0.14
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAAGAGA
Found at i:54501669 original size:14 final size:14
Alignment explanation
Indices: 54501650--54501686 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
54501640 ATAATATAAT
54501650 CCGAAAGTGTGTAG
1 CCGAAAGTGTGTAG
54501664 CCGAAAGTGTGTAG
1 CCGAAAGTGTGTAG
*
54501678 CTGAAAGTG
1 CCGAAAGTG
54501687 AGACTCTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.22
Consensus pattern (14 bp):
CCGAAAGTGTGTAG
Found at i:54506220 original size:16 final size:16
Alignment explanation
Indices: 54506195--54506225 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54506185 AATTTGGATG
*
54506195 TTATTGTTATTATTTA
1 TTATTATTATTATTTA
54506211 TTATTATTATTATTT
1 TTATTATTATTATTT
54506226 CGTAGGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTATTATTATTATTTA
Found at i:54507259 original size:18 final size:17
Alignment explanation
Indices: 54507238--54507287 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
54507228 ACAATTCTTT
54507238 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCT-C
*
54507256 TCTCTTCATCTATGTTCTC
1 TCTCTTCTTCT-T-TTCTC
54507275 T-TCTTCTTCTTTT
1 TCTCTTCTTCTTTT
54507288 GTAATATCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 2 0.07
17 1 0.04
18 18 0.64
19 3 0.11
20 4 0.14
ACGTcount: A:0.04, C:0.32, G:0.02, T:0.62
Consensus pattern (17 bp):
TCTCTTCTTCTTTTCTC
Found at i:54508631 original size:46 final size:46
Alignment explanation
Indices: 54508578--54508753 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
54508568 TATTTGGGCA
54508578 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
54508624 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
54508671 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
54508717 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54508754 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:54508733 original size:93 final size:93
Alignment explanation
Indices: 54508574--54508745 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
54508564 GGGATATTTG
* *
54508574 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
54508639 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
54508667 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
54508732 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
54508746 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:54511742 original size:15 final size:15
Alignment explanation
Indices: 54511703--54511781 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
54511693 GTATCTTGGG
*
54511703 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
54511718 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
54511733 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
54511747 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
54511762 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
54511776 TTTCTT
1 TTTCTT
54511782 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:54511766 original size:29 final size:29
Alignment explanation
Indices: 54511694--54511780 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
54511684 CATAGTATCG
* * * *
54511694 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
54511724 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
54511753 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
54511781 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:54514215 original size:46 final size:46
Alignment explanation
Indices: 54514162--54514337 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
54514152 TATTTGGGCA
54514162 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
54514208 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
54514255 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
54514301 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54514338 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:54514317 original size:93 final size:93
Alignment explanation
Indices: 54514158--54514329 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
54514148 GGGATATTTG
* *
54514158 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
54514223 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
54514251 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
54514316 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
54514330 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:54516742 original size:26 final size:25
Alignment explanation
Indices: 54516713--54516771 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
54516703 ATTTACTAAA
*
54516713 ATACCCTAAGTATG-AAAATTACCATT
1 ATACCCT-AG-ATGCAAAATGACCATT
*
54516739 ATACCCCTAGGTGCAAAATGACCATT
1 ATA-CCCTAGATGCAAAATGACCATT
54516765 ATACCCT
1 ATACCCT
54516772 TAGGGTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
26 19 0.66
27 4 0.14
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (25 bp):
ATACCCTAGATGCAAAATGACCATT
Found at i:54516915 original size:28 final size:28
Alignment explanation
Indices: 54516882--54516965 Score: 91
Period size: 28 Copynumber: 3.1 Consensus size: 28
54516872 GAAGTGTTCC
54516882 GGTGGCTCTGCCACAAATATCTGTTTCT
1 GGTGGCTCTGCCACAAATATCTGTTTCT
* * * *
54516910 GGTGGCCCCGCCACAATTATCTGTATCT
1 GGTGGCTCTGCCACAAATATCTGTTTCT
* **
54516938 GGTGACTCTATCAC-AATATCTG-TTCT
1 GGTGGCTCTGCCACAAATATCTGTTTCT
54516964 GG
1 GG
54516966 CAGCCATGCT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 5 0.11
27 7 0.16
28 33 0.73
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (28 bp):
GGTGGCTCTGCCACAAATATCTGTTTCT
Found at i:54518079 original size:17 final size:18
Alignment explanation
Indices: 54518057--54518090 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54518047 TCACATTGAA
54518057 GTGTTTT-AGTGAAAACT
1 GTGTTTTCAGTGAAAACT
*
54518074 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
54518091 CCTTCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACT
Found at i:54519233 original size:29 final size:29
Alignment explanation
Indices: 54519185--54519258 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
54519175 TGGCCCATTA
*
54519185 GGCCCAATATGGCCCAAATCAC-ATGTATAT
1 GGCCCATTA-GGCCCAAATCACAAT-TATAT
*
54519215 GGCCCATTAGGCTCAAATCACAATTATAT
1 GGCCCATTAGGCCCAAATCACAATTATAT
*
54519244 GGCCCGTTAGGCCCA
1 GGCCCATTAGGCCCA
54519259 GTCACATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
29 29 0.74
30 10 0.26
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (29 bp):
GGCCCATTAGGCCCAAATCACAATTATAT
Found at i:54521812 original size:42 final size:42
Alignment explanation
Indices: 54521749--54521896 Score: 190
Period size: 42 Copynumber: 3.5 Consensus size: 42
54521739 AGATAGCTTC
*
54521749 ATTGGCACTTAGTGTGCGAGATCG-GAATAGCTTCGGCTATGT
1 ATTGGCACTTAGTGTGCGAGATCGAG-ATAGCTTCGACTATGT
* * *
54521791 ATTGGCACTTAGTGTGTGAGATCAAGATAGCTTCGACTATGC
1 ATTGGCACTTAGTGTGCGAGATCGAGATAGCTTCGACTATGT
* * * * * *
54521833 ATTGGCACTTAGCGTGCGTGATTGAGTTAGCTTCGTCTACGT
1 ATTGGCACTTAGTGTGCGAGATCGAGATAGCTTCGACTATGT
54521875 ATTGGCACTTAGTGTGCGAGAT
1 ATTGGCACTTAGTGTGCGAGAT
54521897 TCCCGAATAA
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 89 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (42 bp):
ATTGGCACTTAGTGTGCGAGATCGAGATAGCTTCGACTATGT
Found at i:54526460 original size:30 final size:30
Alignment explanation
Indices: 54526426--54526486 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
54526416 TCCTTAACTC
54526426 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
54526456 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
54526486 A
1 A
54526487 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:54530608 original size:46 final size:46
Alignment explanation
Indices: 54530558--54530730 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
54530548 TGGTTGAGCA
*
54530558 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
54530604 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAATAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT--G
** *
54530649 CATTTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
54530697 CCCGAGCTCGTTGAGTTGATTCCGATTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54530731 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 7 0.07
45 3 0.03
46 56 0.55
47 27 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54533272 original size:78 final size:78
Alignment explanation
Indices: 54533158--54533305 Score: 224
Period size: 78 Copynumber: 1.9 Consensus size: 78
54533148 GTTAGCTGTG
*
54533158 TGACCCAAGTCAGTAACCCCTCCAGTTTTCCAACGGCCAAGGCACACGGGCGTGTCTCCGACCGT
1 TGACCAAAGTCAGTAACCCCTCCAGTTTTCCAACGGCCAAGGCACACGGGCGTGTCTCCGACCGT
54533223 GTGGTTGGTCGTT
66 GTGGTTGGTCGTT
* * * * * **
54533236 TGACCAAAGTTAGTAACCCTTCTAGTTTTCCCACGGCCAAGGCACACGGGTGTGTCTCCGGGCGT
1 TGACCAAAGTCAGTAACCCCTCCAGTTTTCCAACGGCCAAGGCACACGGGCGTGTCTCCGACCGT
54533301 GTGGT
66 GTGGT
54533306 GTAAGTCAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 62 1.00
ACGTcount: A:0.18, C:0.30, G:0.28, T:0.24
Consensus pattern (78 bp):
TGACCAAAGTCAGTAACCCCTCCAGTTTTCCAACGGCCAAGGCACACGGGCGTGTCTCCGACCGT
GTGGTTGGTCGTT
Found at i:54562983 original size:19 final size:20
Alignment explanation
Indices: 54562948--54562985 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
54562938 ATTACAATTT
54562948 AATTTTGCTTTTATTTACTA
1 AATTTTGCTTTTATTTACTA
*
54562968 AATTTT-CTTTTCTTTACT
1 AATTTTGCTTTTATTTACT
54562986 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.21, C:0.13, G:0.03, T:0.63
Consensus pattern (20 bp):
AATTTTGCTTTTATTTACTA
Found at i:54568370 original size:6 final size:6
Alignment explanation
Indices: 54568361--54568440 Score: 74
Period size: 6 Copynumber: 13.0 Consensus size: 6
54568351 AATTAGGTGA
* *
54568361 CAGAAT CAGAAT CAGAAT CAGAAT TAG-GT GACAGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT
* *
54568410 CAGTAT CAGGTAA- CAGAAT CAAAAT CAGAAT
1 CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
54568441 GGGAATGCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
5 3 0.05
6 50 0.83
7 5 0.08
8 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
CAGAAT
Found at i:54568384 original size:31 final size:31
Alignment explanation
Indices: 54568343--54568440 Score: 151
Period size: 31 Copynumber: 3.2 Consensus size: 31
54568333 AACCCATTAT
*
54568343 AGAATAAGAATTAGGTGACAGAATCAGAATC
1 AGAATCAGAATTAGGTGACAGAATCAGAATC
54568374 AGAATCAGAATTAGGTGACAGAATCAGAATC
1 AGAATCAGAATTAGGTGACAGAATCAGAATC
* * * *
54568405 AGAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGAATTAGGTGACAGAATCAGAATC
54568436 AGAAT
1 AGAAT
54568441 GGGAATGCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATTAGGTGACAGAATCAGAATC
Found at i:54568872 original size:27 final size:27
Alignment explanation
Indices: 54568842--54569064 Score: 243
Period size: 27 Copynumber: 8.3 Consensus size: 27
54568832 GGGGCAAAAT
* * *
54568842 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
54568869 GGTAATTCCACCCTAC-AGGGCTATTTT
1 GGTAATTCTACCCTACAAGGG-TATTTC
* * *
54568896 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
54568923 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
54568950 GGTAATTCTAACCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
54568977 GGTAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
** * *
54569004 GGTAATTCTACTTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
54569031 GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
54569058 GGTAATT
1 GGTAATT
54569065 TTACAAATTA
Statistics
Matches: 170, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.03
27 161 0.95
28 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:54568901 original size:54 final size:54
Alignment explanation
Indices: 54568842--54569064 Score: 293
Period size: 54 Copynumber: 4.1 Consensus size: 54
54568832 GGGGCAAAAT
* * * * * * *
54568842 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCCACCCTACAGGGCTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
54568896 AGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
54568950 GGTAATTCTAACCTACAGGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
** * * * *
54569004 GGTAATTCTACTTTATAGGGGTATTTCGATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
54569058 GGTAATT
1 GGTAATT
54569065 TTACAAATTA
Statistics
Matches: 148, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 148 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:54568966 original size:81 final size:81
Alignment explanation
Indices: 54568841--54569118 Score: 308
Period size: 81 Copynumber: 3.4 Consensus size: 81
54568831 AGGGGCAAAA
* * * * * * *
54568841 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCCACCCTACAGGGCTATTTTAGTAATTCTA
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTA
54568906 CCCTACAGGGGTATTT
66 CCCTACAGGGGTATTT
* *
54568922 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAACCTACAGGGGTATTTCGGTAATTCTA
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTA
*
54568987 CCCTACAGAGGTATTT
66 CCCTACAGGGGTATTT
* ** * * * *
54569003 CGGTAATTCTACTTTATAGGGGTATTTCGATAATTCTACCCTATAGGGGTATTTTGGTAATTTTA
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTA
** *
54569068 -CAAATTAGGGGTATTT
66 CCCTA-CAGGGGTATTT
* ** *
54569084 TGGTAATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 TGGTAATTCTACCCTA-CAGGGGTATTTCGGTAATT
54569119 TTGTAAACCA
Statistics
Matches: 164, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
80 3 0.02
81 161 0.98
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.37
Consensus pattern (81 bp):
TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTA
CCCTACAGGGGTATTT
Found at i:54569076 original size:27 final size:27
Alignment explanation
Indices: 54569046--54569120 Score: 132
Period size: 27 Copynumber: 2.8 Consensus size: 27
54569036 TTCTACCCTA
*
54569046 TAGGGGTATTTTGGTAATTTTACAAAT
1 TAGGGGTATTTTGGTAATTTTACAAAC
54569073 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
*
54569100 CAGGGGTATTTTGGTAATTTT
1 TAGGGGTATTTTGGTAATTTT
54569121 GTAAACCAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.44
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:54569077 original size:54 final size:55
Alignment explanation
Indices: 54568860--54569118 Score: 258
Period size: 54 Copynumber: 4.8 Consensus size: 55
54568850 TACCCCACAA
* * * ** ** *
54568860 GGGTATCTCGGTAATTCCACCCTACAGGGCTATTTTAGTAATTCTAC-CCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACAAATATAG
* ** *
54568914 GGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-ACCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACAAATATAG
* **
54568968 GGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCGGTAATTCTAC-TTTATAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACAAATATAG
* * * *
54569022 GGGTATTTCGATAATTCTACCCTATAGGGGTATTTTGGTAATTTTACAAAT-TAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACAAATATAG
* * ** *
54569076 GGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 GGGTATTTCGGTAATTCTACCCTA-CAGGGGTATTTCGGTAATT
54569119 TTGTAAACCA
Statistics
Matches: 177, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
53 2 0.01
54 174 0.98
55 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (55 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACAAATATAG
Found at i:54569126 original size:27 final size:27
Alignment explanation
Indices: 54569047--54569134 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
54569037 TCTACCCTAT
**
54569047 AGGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTTGGTAATTTTACAAACC
54569074 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
**
54569101 AGGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
54569128 AAGGGTA
1 AGGGGTA
54569135 GTTCAGTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:54569143 original size:27 final size:27
Alignment explanation
Indices: 54569086--54569161 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
54569076 GGGTATTTTG
** * * **
54569086 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTGTAAACCAAGGGTAGTTCA
54569113 GTAATTTTGTAAACCAAGGGTAGTTCA
1 GTAATTTTGTAAACCAAGGGTAGTTCA
* *
54569140 GTAATTTTGTAAATCGAGGGTA
1 GTAATTTTGTAAACCAAGGGTA
54569162 AAATGGTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.36
Consensus pattern (27 bp):
GTAATTTTGTAAACCAAGGGTAGTTCA
Found at i:54569169 original size:54 final size:54
Alignment explanation
Indices: 54569111--54569230 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
54569101 AGGGGTATTT
* * *** * *
54569111 TGGTAATTTTGTAAACCAAGGGTAGTTCAGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTCTATAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGAGTAAAA
* * *
54569165 TGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGAGTAAAA
1 TGGTAATTCTATAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGAGTAAAA
54569219 TGGTAATTCTAT
1 TGGTAATTCTAT
54569231 CTTATTTCGG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.33
Consensus pattern (54 bp):
TGGTAATTCTATAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGAGTAAAA
Found at i:54569170 original size:27 final size:27
Alignment explanation
Indices: 54569140--54569228 Score: 142
Period size: 27 Copynumber: 3.3 Consensus size: 27
54569130 GGGTAGTTCA
*
54569140 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
54569167 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
54569194 GTAATTCTGTAAATCGAGAGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
54569221 GTAATTCT
1 GTAATTCT
54569229 ATCTTATTTC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:54569263 original size:27 final size:27
Alignment explanation
Indices: 54569233--54569319 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
54569223 AATTCTATCT
*
54569233 TATTTCGGTAATTTTACAAATCGAGGA
1 TATTTCGGTAATTTTACAAATCGAGGG
* * *
54569260 TATTTGGGTAATTTTATAAATCGGGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
*
54569287 TACTTT-GGTAATTTTACAAGTCGAGGG
1 TA-TTTCGGTAATTTTACAAATCGAGGG
54569314 TATTTC
1 TATTTC
54569320 AATAATTTGG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
26 3 0.06
27 45 0.88
28 3 0.06
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (27 bp):
TATTTCGGTAATTTTACAAATCGAGGG
Found at i:54570582 original size:28 final size:28
Alignment explanation
Indices: 54570550--54570605 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
54570540 TCTTCATTTC
*
54570550 TTTTC-ACTTTTTATTCTTTCCTACTTCT
1 TTTTCTACATTTT-TTCTTTCCTACTTCT
* *
54570578 TTTTCTCCATTTTTTCTTTCCTCCTTCT
1 TTTTCTACATTTTTTCTTTCCTACTTCT
54570606 CCATTTCCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTCTACATTTTTTCTTTCCTACTTCT
Found at i:54582870 original size:9 final size:8
Alignment explanation
Indices: 54582839--54582872 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
54582829 AGTTCCTAAT
54582839 TCACAAAA
1 TCACAAAA
54582847 TCACAAAA
1 TCACAAAA
54582855 TCACAAAA
1 TCACAAAA
54582863 TACACAAAA
1 T-CACAAAA
54582872 T
1 T
54582873 TTCTATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.15
Consensus pattern (8 bp):
TCACAAAA
Found at i:54588388 original size:32 final size:32
Alignment explanation
Indices: 54588352--54588417 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
54588342 GATACCTCTG
*
54588352 AGAATTTTCTGCGTCTTTTTAATATTTTTCCA
1 AGAATTTTCTGCGTCATTTTAATATTTTTCCA
54588384 AGAATTTTCTGCGTCATTTTAATATTTTTCCA
1 AGAATTTTCTGCGTCATTTTAATATTTTTCCA
54588416 AG
1 AG
54588418 GTGTAGGGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.50
Consensus pattern (32 bp):
AGAATTTTCTGCGTCATTTTAATATTTTTCCA
Done.