Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 136 of 410
Found at i:41146096 original size:28 final size:27
Alignment explanation
Indices: 41146033--41146102 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
41146023 ATAGTGAGTC
*
41146033 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
41146060 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
41146088 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41146103 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41153201 original size:42 final size:42
Alignment explanation
Indices: 41153084--41153249 Score: 147
Period size: 42 Copynumber: 3.9 Consensus size: 42
41153074 GGTACTTTAC
* * * *
41153084 CAATGCCATATCCTAGATATGGTCTTACATGTAATCT-AGTAT
1 CAATGCCATATCCCAGACATGGTCTTACACGAAATCTCA-TAT
** * * *
41153126 TGATGCCAATAGCCCAG-CTTTGGTCTTAAACGAAATCTCATAT
1 CAATGCC-ATATCCCAGAC-ATGGTCTTACACGAAATCTCATAT
* * *
41153169 CAATGCCATATCCCAGACATGGTCTTATACGAAGTCTCATAC
1 CAATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAT
* * * *
41153211 CGATGCCATATCCCAGATACGGTCTTACACGTAATCTCA
1 CAATGCCATATCCCAGACATGGTCTTACACGAAATCTCA
41153250 GTAACCCTAA
Statistics
Matches: 98, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 66 0.67
43 31 0.32
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
CAATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAT
Found at i:41160621 original size:43 final size:42
Alignment explanation
Indices: 41160544--41160655 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 42
41160534 TGAGTTTACG
* * **
41160544 TGTAAGACCATATTTGGGATATGGCATCGGTATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
* *
41160586 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCCCA
41160629 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
41160656 TGGTATTGTA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 24 0.39
43 37 0.61
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
Found at i:41162737 original size:42 final size:43
Alignment explanation
Indices: 41162639--41162806 Score: 189
Period size: 43 Copynumber: 3.9 Consensus size: 43
41162629 TCGTACAACA
* *
41162639 CCAATGTCCCAGACATGGTCTTACATGTAATCACATATTGATG
1 CCAATGTCCCAGACAGGGTCTTACATGTAATCACATATCGATG
* **
41162682 CCACTGTCCCAGACAGGGTCTTACATG-AA-CTTATATACGATG
1 CCAATGTCCCAGACAGGGTCTTACATGTAATCACATAT-CGATG
* *
41162724 CCAATGTCCCAGACATGGTCTTACATGTAAATCACAAATCGATG
1 CCAATGTCCCAGACAGGGTCTTACATGT-AATCACATATCGATG
* ***
41162768 CCAACGTCCCAGAC-GTGGTCTTACACAAAATCACATATC
1 CCAATGTCCCAGACAG-GGTCTTACATGTAATCACATATC
41162807 AAAATCCTAT
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 5 0.05
42 31 0.30
43 35 0.34
44 29 0.28
45 4 0.04
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
CCAATGTCCCAGACAGGGTCTTACATGTAATCACATATCGATG
Found at i:41164166 original size:22 final size:22
Alignment explanation
Indices: 41164141--41164185 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
41164131 CCCACAAGGT
41164141 ATGGATTTTGTAAAAATGAATA
1 ATGGATTTTGTAAAAATGAATA
*
41164163 ATGGATTTTGTAAGAATGAATA
1 ATGGATTTTGTAAAAATGAATA
41164185 A
1 A
41164186 GCCCTTAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (22 bp):
ATGGATTTTGTAAAAATGAATA
Found at i:41174288 original size:27 final size:28
Alignment explanation
Indices: 41174232--41174301 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
41174222 AAACTTGTAC
41174232 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
41174260 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
41174287 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
41174302 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:41174312 original size:27 final size:27
Alignment explanation
Indices: 41174232--41174313 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
41174222 AAACTTGTAC
* *
41174232 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
41174260 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
41174287 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
41174314 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:41179709 original size:28 final size:27
Alignment explanation
Indices: 41179646--41179715 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
41179636 ATAGTGAGTC
*
41179646 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
41179673 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
41179701 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41179716 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41187647 original size:28 final size:27
Alignment explanation
Indices: 41187584--41187653 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
41187574 ATAGTGAGTC
*
41187584 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
41187611 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
41187639 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41187654 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41194501 original size:79 final size:79
Alignment explanation
Indices: 41194400--41194582 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 79
41194390 ACGACTCGCT
** *
41194400 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATC-TAACCC
* *
41194463 GGGTTTAGTAACTT-GCA
63 -GATATAGTAACTTAGCA
* **
41194480 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCTAGTCCGAT
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCTAACCCGAT
*
41194544 ATAGTCACTTAGCA
66 ATAGTAACTTAGCA
41194558 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41194583 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
77 19 0.21
78 25 0.28
79 30 0.33
80 16 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCTAACCCGAT
ATAGTAACTTAGCA
Found at i:41194514 original size:39 final size:40
Alignment explanation
Indices: 41194393--41194582 Score: 185
Period size: 40 Copynumber: 4.8 Consensus size: 40
41194383 GGATATAACG
* ** *
41194393 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGTG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
41194433 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
41194473 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
41194512 ACTCGCACGAATGCCTTC-GGA-TCTAGTCC-GATATAGTC
1 ACTCGCACAAATGCCTTCGGGACT-TAGCCCGGATTTAGTA
*
41194550 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
41194583 CATCATTCGA
Statistics
Matches: 123, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
38 17 0.14
39 51 0.41
40 53 0.43
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:41202440 original size:79 final size:82
Alignment explanation
Indices: 41202324--41202508 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
41202314 ACGACTCGCT
** * *
41202324 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
41202387 GGGTTTAGTAACTT-GCA
65 GGATATAGTAACTTAGCA
* **
41202404 CAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCCTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
*
41202467 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
41202484 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41202509 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTAACCCG
GATATAGTAACTTAGCA
Found at i:41202508 original size:40 final size:39
Alignment explanation
Indices: 41202317--41202508 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
41202307 GGATATAACG
* ** * *
41202317 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
41202357 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
41202397 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
41202436 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
41202476 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
41202509 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:41204786 original size:29 final size:29
Alignment explanation
Indices: 41204744--41204861 Score: 143
Period size: 29 Copynumber: 4.1 Consensus size: 29
41204734 GTGAGTATGA
41204744 ATAT-AAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
41204772 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* ** * *
41204801 ATATGAATATGAATTGGGCCTGATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* *
41204830 ATATAAATGAGA-TTGGGCC-AAGTGGGCC
1 ATATAAAGGTGATTTGGGCCTAA-TGGGCC
41204858 ATAT
1 ATAT
41204862 GCATGTATGT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.01
28 21 0.27
29 57 0.72
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATGGGCC
Found at i:41209538 original size:42 final size:42
Alignment explanation
Indices: 41209477--41209597 Score: 143
Period size: 43 Copynumber: 2.9 Consensus size: 42
41209467 TTTGAGTTTA
* **
41209477 CATGTAAGACCATATCTGGGATATGGCATCGGTATGAGATTT
1 CATGTAAGACCATATCTGGGATATGGCATCGATATGAGATCC
** * * *
41209519 TGTGTAAGACCATAGCTGGGCTATTGGCATCTATATGAGATCC
1 CATGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCC
* *
41209562 CATGTAAGACCATATCCGGGATATGGCATTGATATG
1 CATGTAAGACCATATCTGGGATATGGCATCGATATG
41209598 GTACTATGTG
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGGCATCGATATGAGATCC
Found at i:41220928 original size:37 final size:37
Alignment explanation
Indices: 41220869--41220977 Score: 200
Period size: 37 Copynumber: 2.9 Consensus size: 37
41220859 AGCTCAGACG
* *
41220869 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
41220906 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
41220943 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
41220978 ATATATTTCC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:41221178 original size:48 final size:48
Alignment explanation
Indices: 41221124--41221258 Score: 216
Period size: 48 Copynumber: 2.8 Consensus size: 48
41221114 GCACATCGCC
41221124 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
* * *
41221172 TACATATTTCGCACTAGCCATTCGGCTTTACCATATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
* * *
41221220 TACATATTTCACATTAGCCATTCGGCCTTATCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
41221259 TGCATGTTCA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
Found at i:41221294 original size:47 final size:47
Alignment explanation
Indices: 41221228--41221421 Score: 316
Period size: 47 Copynumber: 4.1 Consensus size: 47
41221218 CATACATATT
* * * *
41221228 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
41221275 TCATATTGGCCATTTGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
41221322 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
41221369 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
41221416 TCACAT
1 TCACAT
41221422 AAAATCCTAA
Statistics
Matches: 137, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 137 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:41221325 original size:25 final size:25
Alignment explanation
Indices: 41221296--41221373 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 25
41221286 ATTTGGCCTT
41221296 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
* *
41221321 AT--CACAT-TGGCCAT--TCGGCCTT-
1 ATCACACATAT-G-CATGCTC-ACATTC
41221343 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
41221368 ATCACA
1 ATCACA
41221374 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:41221348 original size:22 final size:22
Alignment explanation
Indices: 41221321--41221396 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
41221311 GCTCACATTC
41221321 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
41221343 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
41221367 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
41221390 ATCACAT
1 ATCACAT
41221397 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:41226779 original size:51 final size:50
Alignment explanation
Indices: 41226699--41226821 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 50
41226689 CTTTGTAGTG
* * *
41226699 TATTGTTAGGAAAGCCTTTGTGGCTAATCTTATGAAAAGTCTTTATGGCA
1 TATTTTTAGGAAAGCCTTTGTGACTAATCTTATGAAAAGCCTTTATGGCA
* * * * *
41226749 TATTTTTAGGAAAGCCCTTTGTTACTAATCTTGTGAACAGCCTTTGTGGCG
1 TATTTTTAGGAAAG-CCTTTGTGACTAATCTTATGAAAAGCCTTTATGGCA
41226800 TATTGTTT-GGAAAGCCTTTGTG
1 TATT-TTTAGGAAAGCCTTTGTG
41226822 GCATATTATG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 20 0.32
51 39 0.63
52 3 0.05
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.40
Consensus pattern (50 bp):
TATTTTTAGGAAAGCCTTTGTGACTAATCTTATGAAAAGCCTTTATGGCA
Found at i:41226828 original size:25 final size:23
Alignment explanation
Indices: 41226679--41226838 Score: 97
Period size: 25 Copynumber: 6.4 Consensus size: 23
41226669 AAATGGATTA
41226679 TTTGGAAAGCCTTTGTAGTG-TATT
1 TTTGGAAAGCCTTTGT-G-GCTATT
*
41226703 GTTAGGAAAGCCTTTGTGGCTAATCT
1 -TTTGGAAAGCCTTTGTGGCT-AT-T
* * * *
41226729 TATGAAAAGTCTTTATGGCATATT
1 TTTGGAAAGCCTTTGTGGC-TATT
** *
41226753 TTTAGGAAAGCCCTTTGTTACTAAT
1 TTT-GGAAAG-CCTTTGTGGCTATT
*
41226778 CTTGTGAACAGCCTTTGTGGCGTATT
1 TTTG-GAA-AGCCTTTGTGGC-TATT
41226804 GTTTGGAAAGCCTTTGTGGCATATT
1 -TTTGGAAAGCCTTTGTGGC-TATT
*
41226829 ATGTGGAAAG
1 -TTTGGAAAG
41226839 ACTGTATGAC
Statistics
Matches: 104, Mismatches: 21, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
23 1 0.01
24 6 0.06
25 78 0.75
26 16 0.15
27 3 0.03
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (23 bp):
TTTGGAAAGCCTTTGTGGCTATT
Found at i:41230340 original size:47 final size:48
Alignment explanation
Indices: 41230249--41230360 Score: 156
Period size: 47 Copynumber: 2.4 Consensus size: 48
41230239 ACCTCTAATT
* * *
41230249 TGTAGATAAACTACCACTGATAACATTTTGTGGACAAGCCACCACTTA
1 TGTAGATAAATTACCACTGATAACACTTTGTGGACAAGACACCACTTA
*
41230297 TGTAGATAAATTGA-CACTGA-AACACTTTGTGGACAAGATACCACTTA
1 TGTAGATAAATT-ACCACTGATAACACTTTGTGGACAAGACACCACTTA
*
41230344 TGTAGATAAATTTCCAC
1 TGTAGATAAATTACCAC
41230361 ATACTTTCAC
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
47 39 0.68
48 17 0.30
49 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (48 bp):
TGTAGATAAATTACCACTGATAACACTTTGTGGACAAGACACCACTTA
Found at i:41235914 original size:14 final size:14
Alignment explanation
Indices: 41235895--41235922 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41235885 CCAACCATGC
41235895 CTTGTGGTAGGATA
1 CTTGTGGTAGGATA
41235909 CTTGTGGTAGGATA
1 CTTGTGGTAGGATA
41235923 TGGTGTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.36, T:0.36
Consensus pattern (14 bp):
CTTGTGGTAGGATA
Found at i:41238739 original size:153 final size:153
Alignment explanation
Indices: 41238493--41238927 Score: 430
Period size: 153 Copynumber: 2.8 Consensus size: 153
41238483 AACTTATGCT
* * * * * * *
41238493 AAACGCCGTCATTTT-AACTGAG-CTTCAGCGGTTTTAGCGGCATTTTTTGAAAAGCACCGCTAA
1 AAACGCCGTCATTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCA-CTTTT-AAAAACACCGCTAA
* * * *
41238556 AGATCGAGTATTAGCGGTGCCTTTTAAAAAACACCGCTAATGTTAGATCTTTAGCGGCGCTTTAC
64 AGATCGAGTATTAGCGGTGCTTTTTTAAAAACACCGCT-ATGTTACACCTTTAGCGGCGCTTTAC
* *
41238621 AAAAAACGTCGCAAAA-TATTTAACA
128 AAAAAACGCCGCAAAAGAATTTAACA
* * * *
41238646 CAATGCCGTCATTTTGTATTGAGCCTTTAGTGGGTTTAGCGGCACTTTTAAAAACACTGCTAAAG
1 AAACGCCGTCATTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCACTTTTAAAAACACCGCTAAAG
* * **
41238711 ATCAAGTATTAGCGGTGCTTTTTTAAAAACACCGCTATGTGTACACCTTTAGCAGCG-TGTTTTA
66 ATCGAGTATTAGCGGTGCTTTTTTAAAAACACCGCTATGT-TACACCTTTAGCGGCGCT-TTACA
**
41238775 AAAAACGCCGCAAAAGAATTTTGCA
129 AAAAACGCCGCAAAAGAATTTAACA
* * * * ** * *
41238800 AAACGTCGTCGTTTTGTATTGAGCTTTTAGTGGCTTTAGCAGTGCTTCTAAAAAAATACCGCTAA
1 AAACGCCGTCATTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCACTT-T-TAAAAACACCGCTAA
* * * * *
41238865 AGATCGAGTATTAGCAGCG-TTTTTTAAGAAACGCCACTATAGGTACACCTTTAGCGGCGCTTT
64 AGATCGAGTATTAGCGGTGCTTTTTTAA-AAACACCGCTAT-GTTACACCTTTAGCGGCGCTTT
41238928 TTTAAAAATG
Statistics
Matches: 231, Mismatches: 41, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
152 5 0.02
153 90 0.39
154 53 0.23
155 26 0.11
156 55 0.24
157 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (153 bp):
AAACGCCGTCATTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCACTTTTAAAAACACCGCTAAAG
ATCGAGTATTAGCGGTGCTTTTTTAAAAACACCGCTATGTTACACCTTTAGCGGCGCTTTACAAA
AAACGCCGCAAAAGAATTTAACA
Found at i:41238919 original size:40 final size:38
Alignment explanation
Indices: 41238875--41238968 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 38
41238865 AGATCGAGTA
41238875 TTAGCAGCGTTTTTTAAGAAACGCCACTATAGGTACACCT
1 TTAGC-GCGTTTTTTAA-AAACGCCACTATAGGTACACCT
* * *
41238915 TTAGCGGCGCTTTTTTAAAAATGCCGCTATATGTACACCT
1 TTAGC-GCG-TTTTTTAAAAACGCCACTATAGGTACACCT
41238955 TTAGCGACGTTTTT
1 TTAGCG-CGTTTTT
41238969 AGAAAGACGC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 6 0.12
40 34 0.71
41 8 0.17
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (38 bp):
TTAGCGCGTTTTTTAAAAACGCCACTATAGGTACACCT
Found at i:41239288 original size:15 final size:14
Alignment explanation
Indices: 41239268--41239302 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
41239258 ACTATTTTAA
*
41239268 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
41239282 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
41239297 GGTTTA
1 GGTTTA
41239303 AGAGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:41239288 original size:22 final size:22
Alignment explanation
Indices: 41239217--41239298 Score: 55
Period size: 22 Copynumber: 3.8 Consensus size: 22
41239207 TTATAGTTTA
* * *
41239217 GGGTTTACGGTATATGG-TTAA
1 GGGTTTAAGGTTTATGGATTAT
*
41239238 GGGTTTAATGTTTATGAGATACTAT
1 GGGTTTAAGGTTTATG-GAT--TAT
41239263 ---TTTAAGGTTTATGGATTAT
1 GGGTTTAAGGTTTATGGATTAT
* *
41239282 GGGTTTAGGGATTATGG
1 GGGTTTAAGGTTTATGG
41239299 TTTAAGAGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
19 3 0.06
21 16 0.34
22 25 0.53
23 1 0.02
25 2 0.04
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.43
Consensus pattern (22 bp):
GGGTTTAAGGTTTATGGATTAT
Found at i:41239384 original size:14 final size:14
Alignment explanation
Indices: 41239367--41239424 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
41239357 GTGTTCATGG
41239367 TTTAAGGTTTATG-
1 TTTAAGGTTTATGA
*
41239380 TTTTAGGATTTATGA
1 TTTAAGG-TTTATGA
* *
41239395 TTTAGGGTTTAGGA
1 TTTAAGGTTTATGA
41239409 GTTTAAGGTTTA-GA
1 -TTTAAGGTTTATGA
41239423 TT
1 TT
41239425 AATTAGTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 8 0.22
14 14 0.38
15 15 0.41
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (14 bp):
TTTAAGGTTTATGA
Found at i:41239391 original size:21 final size:22
Alignment explanation
Indices: 41239323--41239421 Score: 73
Period size: 21 Copynumber: 4.6 Consensus size: 22
41239313 AACGGTTGGG
41239323 GTTTAAGGTTTA-GGTATTATGG-
1 GTTTAAGGTTTAGGGT-TTA-GGA
* * *
41239345 G-TTAAGGGTTAGGTGTTCATG-
1 GTTTAAGGTTTAGG-GTTTAGGA
* *
41239366 GTTTAAGGTTTATGTTTTAGGA
1 GTTTAAGGTTTAGGGTTTAGGA
* *
41239388 -TTTATGATTTAGGGTTTAGGA
1 GTTTAAGGTTTAGGGTTTAGGA
41239409 GTTTAAGGTTTAG
1 GTTTAAGGTTTAG
41239422 ATTAATTAGT
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
21 32 0.55
22 24 0.41
23 2 0.03
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.45
Consensus pattern (22 bp):
GTTTAAGGTTTAGGGTTTAGGA
Found at i:41239566 original size:14 final size:14
Alignment explanation
Indices: 41239515--41239559 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
41239505 TTAATTATCA
*
41239515 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
41239529 TTATGGTTTAGTGT
1 TTATGGTTTAGGGT
*
41239543 GTATGGTTTAGGGT
1 TTATGGTTTAGGGT
41239557 TTA
1 TTA
41239560 AGCTTTAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:41239636 original size:7 final size:7
Alignment explanation
Indices: 41239626--41239669 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
41239616 AATGGTCAGG
41239626 GGTTTAT
1 GGTTTAT
41239633 GGTTTAT
1 GGTTTAT
41239640 GGTTTAT
1 GGTTTAT
*
41239647 GTTTTAT
1 GGTTTAT
** *
41239654 AATTTAG
1 GGTTTAT
41239661 GGTTTAT
1 GGTTTAT
41239668 GG
1 GG
41239670 AGATATGGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (7 bp):
GGTTTAT
Found at i:41239685 original size:22 final size:23
Alignment explanation
Indices: 41239657--41239710 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
41239647 GTTTTATAAT
41239657 TTAGGGTTTATGGAGATATG-GG
1 TTAGGGTTTATGGAGATATGAGG
* *
41239679 TTAGGG-TTA-GGGGATATGAGT
1 TTAGGGTTTATGGAGATATGAGG
41239700 TTAGGGTTTAT
1 TTAGGGTTTAT
41239711 ATTAATTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.30
21 10 0.37
22 9 0.33
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (23 bp):
TTAGGGTTTATGGAGATATGAGG
Found at i:41240558 original size:41 final size:40
Alignment explanation
Indices: 41240495--41240600 Score: 142
Period size: 41 Copynumber: 2.6 Consensus size: 40
41240485 AAAGAAAATT
* *
41240495 AAAATTGAGCAATAGTGACGTTTTTGGGT-AAAACGCCGTA
1 AAAATTGAGCTATAGTGGCGTTTTT-GGTAAAAACGCCGTA
* *
41240535 AAAAGTTGAGCTATAATGGCGTTTTTGGTAAAAATGCCGTAA
1 AAAA-TTGAGCTATAGTGGCGTTTTTGGTAAAAACGCCGT-A
41240577 AAAATTGAGCTATAGTGGCGTTTT
1 AAAATTGAGCTATAGTGGCGTTTT
41240601 CACAAAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
40 7 0.12
41 46 0.79
42 5 0.09
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (40 bp):
AAAATTGAGCTATAGTGGCGTTTTTGGTAAAAACGCCGTA
Found at i:41240609 original size:41 final size:41
Alignment explanation
Indices: 41240524--41240610 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
41240514 GTTTTTGGGT
* * ****
41240524 AAAACGCCGTAAAAAGTTGAGCTATAATGGCGTTTTTGGTA
1 AAAATGCCGTAAAAAATTGAGCTATAATGGCGTTTTCACAA
*
41240565 AAAATGCCGTAAAAAATTGAGCTATAGTGGCGTTTTCACAA
1 AAAATGCCGTAAAAAATTGAGCTATAATGGCGTTTTCACAA
41240606 AAAAT
1 AAAAT
41240611 TCCGAGAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.28
Consensus pattern (41 bp):
AAAATGCCGTAAAAAATTGAGCTATAATGGCGTTTTCACAA
Found at i:41247281 original size:7 final size:7
Alignment explanation
Indices: 41247271--41247306 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
41247261 TTTTATATAC
41247271 TAATAAA
1 TAATAAA
41247278 TAATAAA
1 TAATAAA
41247285 TAATGAAA
1 TAAT-AAA
*
41247293 TAATATA
1 TAATAAA
41247300 TAATAAA
1 TAATAAA
41247307 AGGAAGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:41247342 original size:15 final size:15
Alignment explanation
Indices: 41247265--41247472 Score: 108
Period size: 15 Copynumber: 13.5 Consensus size: 15
41247255 TTTAATTTTT
41247265 ATATACTAAT-AAATA
1 ATATA-TAATAAAATA
* *
41247280 ATAAATAATGAAATA
1 ATATATAATAAAATA
*
41247295 ATATATAATAAAAGGA
1 ATATATAATAAAA-TA
* * *
41247311 AGATATTATAGGGAATA
1 ATATATAATA--AAATA
41247328 ATATATAATAAAATA
1 ATATATAATAAAATA
41247343 TGATATATAATAAAAT-
1 --ATATATAATAAAATA
41247359 ATATA-AATAAAAT-
1 ATATATAATAAAATA
41247372 ATA-ATGAAATATAAATA
1 ATATAT--AATA-AAATA
* *
41247389 ATATGATAA-AATATC
1 ATAT-ATAATAAAATA
41247404 ATATA-AATAAAAATA
1 ATATATAAT-AAAATA
* *** *
41247419 ATATATACTATTTTT
1 ATATATAATAAAATA
41247434 ATATATAATTAAAA-A
1 ATATATAA-TAAAATA
* *
41247449 ATAAATAATAAATTAA
1 ATATATAATAAAAT-A
41247465 ATATATAA
1 ATATATAA
41247473 AAGGGATTAA
Statistics
Matches: 146, Mismatches: 28, Indels: 37
0.69 0.13 0.18
Matches are distributed among these distances:
12 1 0.01
13 13 0.09
14 14 0.10
15 60 0.41
16 26 0.18
17 28 0.19
18 2 0.01
19 2 0.01
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (15 bp):
ATATATAATAAAATA
Found at i:41247343 original size:10 final size:10
Alignment explanation
Indices: 41247324--41247412 Score: 60
Period size: 10 Copynumber: 8.9 Consensus size: 10
41247314 TATTATAGGG
*
41247324 AATAATATAT
1 AATAAAATAT
41247334 AATAAAATAT
1 AATAAAATAT
*
41247344 GAT---ATAT
1 AATAAAATAT
41247351 AATAAAATATAT
1 AAT-AAA-ATAT
41247363 AAATAAAATAT
1 -AATAAAATAT
*
41247374 AATGAAATAT
1 AATAAAATAT
*
41247384 AA-ATAATAT
1 AATAAAATAT
*
41247393 GATAAAATAT
1 AATAAAATAT
*
41247403 CATATAAATA
1 AATA-AAATA
41247413 AAAATAATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
7 6 0.10
9 6 0.10
10 31 0.50
11 9 0.15
12 7 0.11
13 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (10 bp):
AATAAAATAT
Found at i:41247348 original size:17 final size:16
Alignment explanation
Indices: 41247328--41247396 Score: 68
Period size: 17 Copynumber: 4.2 Consensus size: 16
41247318 ATAGGGAATA
41247328 ATATATAATAAAATATG
1 ATATATAA-AAAATATG
41247345 ATATATAATAAAATAT-
1 ATATATAA-AAAATATG
* *
41247361 ATAAATAAAATATAATG
1 ATATATAAAAAAT-ATG
* *
41247378 AAATATAAATAATATG
1 ATATATAAAAAATATG
41247394 ATA
1 ATA
41247397 AAATATCATA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
15 4 0.09
16 14 0.33
17 25 0.58
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATATATAAAAAATATG
Found at i:41247368 original size:40 final size:42
Alignment explanation
Indices: 41247324--41247421 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 42
41247314 TATTATAGGG
* *
41247324 AATAATATATAATAAAATAT-GAT-ATATAATAAAATATATA
1 AATAAAATATAATAAAATATAAATAATATAATAAAATATATA
* *
41247364 AATAAAATATAATGAAATATAAATAATATGATAAAATATCATATA
1 AATAAAATATAATAAAATATAAATAATATAAT-AAA-AT-ATATA
41247409 AATAAAA-ATAATA
1 AATAAAATATAATA
41247422 TATACTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
40 18 0.38
41 2 0.04
42 6 0.12
43 3 0.06
44 7 0.15
45 12 0.25
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (42 bp):
AATAAAATATAATAAAATATAAATAATATAATAAAATATATA
Found at i:41247400 original size:19 final size:20
Alignment explanation
Indices: 41247324--41247412 Score: 69
Period size: 19 Copynumber: 4.4 Consensus size: 20
41247314 TATTATAGGG
41247324 AATAATATATAATAAAATAT-
1 AATAA-ATATAATAAAATATA
*
41247344 GAT--ATATAATAAAATATATA
1 AATAAATATAAT-AAA-ATATA
*
41247364 AATAAAATATAATGAAATATA
1 AAT-AAATATAATAAAATATA
*
41247385 AAT-AATATGATAAAATATCA
1 AATAAATATAATAAAATAT-A
*
41247405 TATAAATA
1 AATAAATA
41247413 AAAATAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
17 7 0.13
18 3 0.05
19 17 0.31
20 7 0.13
21 12 0.22
22 2 0.04
23 7 0.13
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
AATAAATATAATAAAATATA
Found at i:41249526 original size:44 final size:44
Alignment explanation
Indices: 41248935--41249518 Score: 681
Period size: 44 Copynumber: 13.3 Consensus size: 44
41248925 TCAAGAAAGT
* * *
41248935 CAAATCTGCTATCTTCAACCTGCTTCCTCT--CAATATAGAGACGC
1 CAAATCTGCTATCTTCGATCTGC-T-CTCTGACAATACAGAGACGC
* * ** * *
41248979 C-AAGCCGAAATGTTCGATCTGCTCTCTGATAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * * * *
41249022 CGAATCTGCTACCCTCGATCTGCTCTCTGACAATACAGAGGCAC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * * * * *
41249066 CAAATCTACCATCTTCGACCTGCTATCTCACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * *
41249110 CAAATCTGCTATCTTCAATCTGCTCTTTGACAATACAGGGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* *
41249154 CAAATCTGCTATCTACGATCTGCTCTCTGACAATACAGGGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* *
41249198 CAAATCTGCTATCTACGATCTGCTCTCTGACAATACAAAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * ** *
41249242 TAAATTTATTATCTTCGATCTGTTCTCTGACAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * * *
41249286 CAAATCTGCTATCTTCGATTTTCTCTTTGACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * * * *
41249330 CAAATCTACTATCTTCGATCCGCTTTCTGACAATACAGGGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* *
41249374 CAAATCTGCTATCTTTGATCTGCTCTTTGACAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * * *
41249418 CAAATCTACTATCTTTGATCCGCT-TCCTGACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCT-CTGACAATACAGAGACGC
*
41249462 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGGGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
41249506 CAAATCTGCTATC
1 CAAATCTGCTATC
41249519 GGTGATCTAC
Statistics
Matches: 452, Mismatches: 83, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
41 4 0.01
42 1 0.00
43 28 0.06
44 418 0.92
45 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (44 bp):
CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
Found at i:41250407 original size:15 final size:14
Alignment explanation
Indices: 41250387--41250420 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
41250377 GGCCTCTCCA
*
41250387 TTTTTTTTCTTTCTT
1 TTTTTTTTATTT-TT
41250402 TTTTTTTTATTTTT
1 TTTTTTTTATTTTT
41250416 TTTTT
1 TTTTT
41250421 GAAGTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTTTTTTATTTTT
Found at i:41261529 original size:7 final size:7
Alignment explanation
Indices: 41261519--41261554 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
41261509 TTTTATATAC
41261519 TAATAAA
1 TAATAAA
41261526 TAATAAA
1 TAATAAA
41261533 TAATGAAA
1 TAAT-AAA
*
41261541 TAATATA
1 TAATAAA
41261548 TAATAAA
1 TAATAAA
41261555 AGGAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:41261543 original size:15 final size:14
Alignment explanation
Indices: 41261519--41261554 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
41261509 TTTTATATAC
41261519 TAATAAATAATAAA
1 TAATAAATAATAAA
*
41261533 TAATGAAATAATATA
1 TAAT-AAATAATAAA
41261548 TAATAAA
1 TAATAAA
41261555 AGGAAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:41261585 original size:5 final size:5
Alignment explanation
Indices: 41261572--41261671 Score: 57
Period size: 5 Copynumber: 20.2 Consensus size: 5
41261562 TAATATAGGG
* * * *
41261572 AATAA AATAT AATAA AATAT GATATAT AATAA AATAT -ATA- AATAA AATAT
1 AATAT AATAT AATAT AATAT -A-ATAT AATAT AATAT AATAT AATAT AATAT
* * * *
41261622 AATGA- AATAT AA-AT AATAT GATAA AATAT CATAT AA-AT AAAAAT AATAT
1 AAT-AT AATAT AATAT AATAT AATAT AATAT AATAT AATAT -AATAT AATAT
41261671 A
1 A
41261672 TACTATTTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
4 13 0.18
5 51 0.70
6 5 0.07
7 4 0.05
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (5 bp):
AATAT
Found at i:41261587 original size:10 final size:10
Alignment explanation
Indices: 41261572--41261660 Score: 69
Period size: 10 Copynumber: 8.9 Consensus size: 10
41261562 TAATATAGGG
41261572 AATAAAATAT
1 AATAAAATAT
41261582 AATAAAATAT
1 AATAAAATAT
*
41261592 GAT---ATAT
1 AATAAAATAT
41261599 AATAAAATATAT
1 AAT-AAA-ATAT
41261611 AAATAAAATAT
1 -AATAAAATAT
*
41261622 AATGAAATAT
1 AATAAAATAT
*
41261632 AA-ATAATAT
1 AATAAAATAT
*
41261641 GATAAAATAT
1 AATAAAATAT
*
41261651 CATATAAATA
1 AATA-AAATA
41261661 AAAATAATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
7 6 0.10
9 6 0.10
10 32 0.51
11 9 0.14
12 7 0.11
13 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (10 bp):
AATAAAATAT
Found at i:41261600 original size:17 final size:16
Alignment explanation
Indices: 41261578--41261644 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 16
41261568 AGGGAATAAA
41261578 ATATAATAAAATATGAT
1 ATATAA-AAAATATGAT
41261595 ATATAATAAAATAT-AT
1 ATATAA-AAAATATGAT
* * *
41261611 AAATAAAATATAATGAA
1 ATATAAAAAAT-ATGAT
*
41261628 ATATAAATAATATGAT
1 ATATAAAAAATATGAT
41261644 A
1 A
41261645 AAATATCATA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
15 4 0.10
16 14 0.34
17 23 0.56
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATATAAAAAATATGAT
Found at i:41261616 original size:40 final size:45
Alignment explanation
Indices: 41261572--41261669 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 45
41261562 TAATATAGGG
*
41261572 AATAAAATATAATAAAATAT-GAT-ATATAAT-AAA-AT-ATATA
1 AATAAAATATAATAAAATATAAATAATATAATAAAATATCATATA
* *
41261612 AATAAAATATAATGAAATATAAATAATATGATAAAATATCATATA
1 AATAAAATATAATAAAATATAAATAATATAATAAAATATCATATA
41261657 AATAAAA-ATAATA
1 AATAAAATATAATA
41261670 TATACTATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 19 0.39
41 2 0.04
42 6 0.12
43 3 0.06
44 7 0.14
45 12 0.24
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (45 bp):
AATAAAATATAATAAAATATAAATAATATAATAAAATATCATATA
Found at i:41261666 original size:30 final size:29
Alignment explanation
Indices: 41261577--41261671 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 29
41261567 TAGGGAATAA
41261577 AATATAATAAAATATGATATATAAT-AAAAT
1 AATATAATAAAATAT-ATATA-AATAAAAAT
*
41261607 -ATATAAATAAAATATA-ATGAAATATAAAT
1 AATAT-AATAAAATATATAT-AAATAAAAAT
*
41261636 AATATGATAAAATATCATATAAATAAAAAT
1 AATATAATAAAATAT-ATATAAATAAAAAT
41261666 AATATA
1 AATATA
41261672 TACTATTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
28 5 0.09
29 19 0.35
30 29 0.53
31 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (29 bp):
AATATAATAAAATATATATAAATAAAAAT
Found at i:41261672 original size:17 final size:15
Alignment explanation
Indices: 41261578--41261673 Score: 78
Period size: 15 Copynumber: 6.3 Consensus size: 15
41261568 AGGGAATAAA
41261578 ATAT-AATAAAATAT
1 ATATAAATAAAATAT
41261592 GATATATAAT-AAA-AT
1 -ATATA-AATAAAATAT
41261607 ATATAAATAAAATAT
1 ATATAAATAAAATAT
41261622 A-ATGAAATATAAATA-
1 ATAT-AAATA-AAATAT
*
41261637 ATAT-GATAAAATAT
1 ATATAAATAAAATAT
41261651 CATATAAATAAAAATAAT
1 -ATATAAAT-AAAAT-AT
41261669 ATATA
1 ATATA
41261674 CTATTTTTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 22
0.74 0.02 0.24
Matches are distributed among these distances:
13 8 0.12
14 13 0.19
15 19 0.28
16 12 0.18
17 13 0.19
18 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (15 bp):
ATATAAATAAAATAT
Found at i:41264222 original size:93 final size:93
Alignment explanation
Indices: 41264110--41264280 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
41264100 GCCCATAAGT
* *
41264110 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41264175 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
41264203 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
41264268 CGAGTTCGGATGC
66 CGAGCTCGGATGC
41264281 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:41264277 original size:46 final size:46
Alignment explanation
Indices: 41264102--41264277 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
41264092 TGTAACCCGC
* *
41264102 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
41264148 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
41264194 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
41264241 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
41264278 TGCTCAACCA
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:41266683 original size:15 final size:15
Alignment explanation
Indices: 41266654--41266703 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
41266644 CAAAGATAAC
41266654 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
41266668 AAGAAAACCAGAATA
1 AAGAAAACCAGAATA
* * *
41266683 AAGAGATCCAGGATA
1 AAGAAAACCAGAATA
41266698 AAGAAA
1 AAGAAA
41266704 CCAAGATACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 9 0.29
15 22 0.71
ACGTcount: A:0.62, C:0.12, G:0.18, T:0.08
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:41269708 original size:93 final size:93
Alignment explanation
Indices: 41269596--41269767 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
41269586 GCCCATAAGT
* *
41269596 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41269661 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
41269689 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
41269754 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
41269768 AACCATCCTA
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:41269763 original size:46 final size:46
Alignment explanation
Indices: 41269588--41269763 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
41269578 TGTAACCCGC
* *
41269588 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
41269634 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
41269680 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
41269727 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
41269764 TGCCAACCAT
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:41273895 original size:29 final size:29
Alignment explanation
Indices: 41273862--41273993 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
41273852 GTGACGAGAT
41273862 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
41273891 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
41273920 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
41273949 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
41273978 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41273994 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:41281240 original size:29 final size:29
Alignment explanation
Indices: 41281207--41281338 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
41281197 GTGACGAGAT
41281207 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
41281236 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
41281265 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
41281294 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
41281323 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41281339 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:41292698 original size:43 final size:44
Alignment explanation
Indices: 41292586--41292712 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 44
41292576 CAATGCCAAC
41292586 GTCCCAAACATGGTTTTACA-AGT-AATCAAATATCGATACCACT
1 GTCCCAAACATGGTTTTACACA-TAAATCAAATATCGATACCACT
* * * *
41292629 GTCCCAAACAGGGTCTTACACA-AAATCAAATA-CGATGTCGA-T
1 GTCCCAAACATGGTTTTACACATAAATCAAATATCGAT-ACCACT
* *
41292671 GTCCCAGACATGGTTTTACACATAAATCATAA-GTCGATACCA
1 GTCCCAAACATGGTTTTACACATAAATCA-AATATCGATACCA
41292713 ACGTTCCAGA
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
42 24 0.35
43 37 0.54
44 7 0.10
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (44 bp):
GTCCCAAACATGGTTTTACACATAAATCAAATATCGATACCACT
Found at i:41303730 original size:40 final size:40
Alignment explanation
Indices: 41303511--41303708 Score: 287
Period size: 40 Copynumber: 5.0 Consensus size: 40
41303501 TCGAATGATG
* * *
41303511 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
41303551 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
41303591 TCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
41303631 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
41303671 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
41303709 TAACCGGGCC
Statistics
Matches: 148, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.01
40 136 0.92
41 11 0.07
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41303736 original size:40 final size:40
Alignment explanation
Indices: 41303511--41303736 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
41303501 TCGAATGATG
* *
41303511 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
41303551 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41303591 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41303631 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41303671 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
41303712 -CCGGGCCATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41303737 AACGAGTGGC
Statistics
Matches: 170, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 159 0.94
41 10 0.06
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41305812 original size:25 final size:25
Alignment explanation
Indices: 41305780--41305832 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
41305770 CTTATCTAAC
41305780 AACCAAGCTTAATAATCTTTCATCA
1 AACCAAGCTTAATAATCTTTCATCA
41305805 AACCAAGCTTAATAATCTTTCATCA
1 AACCAAGCTTAATAATCTTTCATCA
41305830 AAC
1 AAC
41305833 TTCAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.25, G:0.04, T:0.30
Consensus pattern (25 bp):
AACCAAGCTTAATAATCTTTCATCA
Found at i:41306373 original size:14 final size:14
Alignment explanation
Indices: 41306354--41306380 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41306344 TGATAACCTT
41306354 AAAAATAAAAAAAG
1 AAAAATAAAAAAAG
41306368 AAAAATAAAAAAA
1 AAAAATAAAAAAA
41306381 TGGATTCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.04, T:0.07
Consensus pattern (14 bp):
AAAAATAAAAAAAG
Found at i:41316004 original size:12 final size:12
Alignment explanation
Indices: 41315987--41316011 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41315977 GTTTCCACTT
41315987 TGCTAGAATTTC
1 TGCTAGAATTTC
41315999 TGCTAGAATTTC
1 TGCTAGAATTTC
41316011 T
1 T
41316012 AGTGTGACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TGCTAGAATTTC
Found at i:41319543 original size:85 final size:85
Alignment explanation
Indices: 41319415--41319571 Score: 208
Period size: 85 Copynumber: 1.8 Consensus size: 85
41319405 AACAAATACA
* * * * * * *
41319415 ATGTCGATGTCCCGGACGTGGTCTTACATGTAATTTAATATCGATGCCTCTGTCCCAGACAGGGT
1 ATGTCGATGTCCCAGACATGGTCTTACACGTAATTTAATATCGAGGCCTATGCCCCAGACACGGT
41319480 CTGACACAAAATCAGATGCG
66 CTGACACAAAATCAGATGCG
* *
41319500 ATGTCGATGTCCCAGACATGGTCTTATACGTAATTCTCA-ATCGAGGCCTATGCCCCAGACACGG
1 ATGTCGATGTCCCAGACATGGTCTTACACGTAATT-TAATATCGAGGCCTATGCCCCAGACACGG
*
41319564 TCTTACAC
65 TCTGACAC
41319572 GATGTCTCAG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
85 59 0.97
86 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (85 bp):
ATGTCGATGTCCCAGACATGGTCTTACACGTAATTTAATATCGAGGCCTATGCCCCAGACACGGT
CTGACACAAAATCAGATGCG
Found at i:41320160 original size:11 final size:11
Alignment explanation
Indices: 41320144--41320168 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
41320134 ATATGATATT
41320144 TTATTATTTTA
1 TTATTATTTTA
41320155 TTATTATTTTA
1 TTATTATTTTA
41320166 TTA
1 TTA
41320169 ATATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:41322237 original size:11 final size:11
Alignment explanation
Indices: 41322221--41322245 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
41322211 TTATATATAC
41322221 TAATAAAATAA
1 TAATAAAATAA
41322232 TAATAAAATAA
1 TAATAAAATAA
41322243 TAA
1 TAA
41322246 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:41322295 original size:4 final size:4
Alignment explanation
Indices: 41322274--41322321 Score: 73
Period size: 4 Copynumber: 12.5 Consensus size: 4
41322264 AAATTAAAAT
*
41322274 ATTA A-TA ACTA A-TA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
41322320 AT
1 AT
41322322 CTAAAATATC
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 6 0.14
4 36 0.86
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (4 bp):
ATTA
Found at i:41329894 original size:43 final size:43
Alignment explanation
Indices: 41329847--41329948 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 43
41329837 TCCCGGACGT
**
41329847 GGTCTTACATGTAATTC-AATATCGATGCCTCTGTCCCAAACAG
1 GGTCTTACATGTAATTCGAATA-CGATGCCGATGTCCCAAACAG
* * * *
41329890 GGTCTTACATG-AAATCGGATACGATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAATTCGAATACGATGCCGATGTCCCAAACAG
* *
41329932 GGTCTTATACGTAATTC
1 GGTCTTACATGTAATTC
41329949 TCAATCGAGA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
42 30 0.62
43 18 0.38
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAATTCGAATACGATGCCGATGTCCCAAACAG
Found at i:41331851 original size:12 final size:12
Alignment explanation
Indices: 41331834--41331862 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
41331824 TTTAAAACAA
41331834 TTTACAATATAG
1 TTTACAATATAG
41331846 TTTACAATATAG
1 TTTACAATATAG
41331858 TTTAC
1 TTTAC
41331863 TAAAAGCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (12 bp):
TTTACAATATAG
Found at i:41337046 original size:18 final size:18
Alignment explanation
Indices: 41337023--41337061 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
41337013 ATGCCAGGTG
*
41337023 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTATA
41337041 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
41337059 TGT
1 TGT
41337062 TTTCATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:41340988 original size:14 final size:13
Alignment explanation
Indices: 41340969--41341017 Score: 71
Period size: 14 Copynumber: 3.6 Consensus size: 13
41340959 ATTTAATGTT
*
41340969 TAATTATGTTAGGA
1 TAATTAT-TAAGGA
41340983 TAATTATTAAGAGA
1 TAATTATTAAG-GA
41340997 TAATTATTAAGGA
1 TAATTATTAAGGA
41341010 TAATTATT
1 TAATTATT
41341018 TAGATTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
13 13 0.39
14 20 0.61
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (13 bp):
TAATTATTAAGGA
Found at i:41341027 original size:27 final size:26
Alignment explanation
Indices: 41340967--41341035 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
41340957 TTATTTAATG
41340967 TTTAATTATGTTAGGATAATTATTAAGA
1 TTTAATTA--TTAGGATAATTATTAAGA
** *
41340995 GATAATTATTAAGGATAATTATTTAGA
1 TTTAATTATT-AGGATAATTATTAAGA
41341022 TTTAATT-TTAGGAT
1 TTTAATTATTAGGAT
41341036 TTAATTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 5 0.14
26 4 0.11
27 20 0.57
28 6 0.17
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (26 bp):
TTTAATTATTAGGATAATTATTAAGA
Found at i:41341054 original size:10 final size:10
Alignment explanation
Indices: 41341041--41341083 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
41341031 AGGATTTAAT
41341041 TTTATTTATC
1 TTTATTTATC
*
41341051 TTTAATTATC
1 TTTATTTATC
41341061 TTTATTTAT-
1 TTTATTTATC
41341070 TTGTATTTATC
1 TT-TATTTATC
41341081 TTT
1 TTT
41341084 TAGAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTATTTATC
Found at i:41341188 original size:48 final size:48
Alignment explanation
Indices: 41341126--41341221 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
41341116 AGTACTATAA
41341126 GTAGGGGATGAAGTGACATAAATTTGGTCCATCTTTTTGCTATAACAC
1 GTAGGGGATGAAGTGACATAAATTTGGTCCATCTTTTTGCTATAACAC
41341174 GTAGGGGATGAAGTGACATAAATTTGGTCCATCTTTTTGCTATAACAC
1 GTAGGGGATGAAGTGACATAAATTTGGTCCATCTTTTTGCTATAACAC
41341222 TCTCTCCCCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (48 bp):
GTAGGGGATGAAGTGACATAAATTTGGTCCATCTTTTTGCTATAACAC
Found at i:41341886 original size:17 final size:18
Alignment explanation
Indices: 41341855--41341888 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
41341845 TATTCTCCAT
41341855 TTTAATTTTTGCAATTTA
1 TTTAATTTTTGCAATTTA
41341873 TTTAATTTTT-CAATTT
1 TTTAATTTTTGCAATTT
41341889 CAATTCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTAATTTTTGCAATTTA
Found at i:41345473 original size:34 final size:33
Alignment explanation
Indices: 41345405--41345521 Score: 136
Period size: 34 Copynumber: 3.7 Consensus size: 33
41345395 TTAAAAAAAC
* *
41345405 TAAACCCTAATTTAAATAA--T-TTT--AACCC
1 TAAACCCTAATTTAATTAATTTATTTAAAACCA
* *
41345433 TAAACCCTAATTTAATTTATTTATTTAAAACCTT
1 TAAACCCTAATTTAATTAATTTATTTAAAACC-A
* *
41345467 TAAACCCTAATTTACTTAATTTATTTAAAATCA
1 TAAACCCTAATTTAATTAATTTATTTAAAACCA
41345500 TAAACCCTAATTTAATTAATTT
1 TAAACCCTAATTTAATTAATTT
41345522 CTATAAAATA
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
28 17 0.23
30 1 0.01
31 3 0.04
33 25 0.33
34 29 0.39
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (33 bp):
TAAACCCTAATTTAATTAATTTATTTAAAACCA
Found at i:41345613 original size:34 final size:35
Alignment explanation
Indices: 41345563--41345641 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
41345553 TTAAAATCCA
*
41345563 AAAACCTTAAACCCTAACTTATTTTAACAAAAACCT
1 AAAACC-TAAACCCTAAATTATTTTAACAAAAACCT
** *
41345599 AAAACCTAAA-CCTAAATTATTTTAGGAAAACCCT
1 AAAACCTAAACCCTAAATTATTTTAACAAAAACCT
41345633 -AAACCTAAA
1 AAAACCTAAA
41345642 AACCCTAGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
33 9 0.23
34 20 0.51
35 4 0.10
36 6 0.15
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.25
Consensus pattern (35 bp):
AAAACCTAAACCCTAAATTATTTTAACAAAAACCT
Found at i:41348391 original size:40 final size:40
Alignment explanation
Indices: 41348319--41348503 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
41348309 GCTACTCGTT
* *
41348319 CAAATGCCTTCGGGACATAGCACGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
41348359 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
41348399 CAAATGCCTTCGAG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
41348438 CAAATGCCTTC-GGATCTTAGTCCAGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
41348479 CAAA-GTCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41348504 CATCATTCGA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 34 0.28
40 74 0.61
41 13 0.11
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:41348433 original size:39 final size:40
Alignment explanation
Indices: 41348347--41348449 Score: 163
Period size: 39 Copynumber: 2.6 Consensus size: 40
41348337 AGCACGGTTA
* * *
41348347 TAGTAACTCGCATAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAAT
*
41348387 TAGTAACTCGCACAAATGCCTTCGAG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAAT
41348426 TAGTAACTCGCACAAATGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCG
41348450 GATCTTAGTC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.59
40 24 0.41
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAAT
Found at i:41348489 original size:79 final size:80
Alignment explanation
Indices: 41348319--41348503 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
41348309 GCTACTCGTT
* * * * * *
41348319 CAAATGCCTTCGGGACATAGCACGG-TTATAGTAACTCGCATAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGAGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
41348383 GATTTAGTAACTCGCA
65 GATATAGTAACTAGCA
**
41348399 CAAATGCCTTCGAG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCA
1 CAAATGCCTTCGAGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCA
*
41348462 GATATAGTCACTTAGCA
65 GATATAGTAAC-TAGCA
* *
41348479 CAAA-GTCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGAGACTTAGCCCGGA
41348504 CATCATTCGA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.59
80 33 0.38
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGAGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCA
Found at i:41353501 original size:27 final size:27
Alignment explanation
Indices: 41353460--41353513 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
41353450 TGTCATGTGA
* *
41353460 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
41353487 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
41353514 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:41356231 original size:27 final size:27
Alignment explanation
Indices: 41356190--41356243 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
41356180 TGTCATGTGA
* *
41356190 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
41356217 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
41356244 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:41356579 original size:49 final size:49
Alignment explanation
Indices: 41356490--41356584 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
41356480 TCTATTGTGA
** * *
41356490 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAAACTACTACGCGTACCAGATAATT
* *
41356539 GGTCGCATGTGTAGTACTAAGTGCAAACTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAAACTACTACGCGTACCAGATA
41356585 GCCTTGTCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAAACTACTACGCGTACCAGATAATT
Found at i:41359988 original size:30 final size:30
Alignment explanation
Indices: 41359954--41360015 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
41359944 TTTGTTTATA
41359954 TATTCACTAAACTATGAATGCCAATGAATT
1 TATTCACTAAACTATGAATGCCAATGAATT
41359984 TATTCACTAAACTATGAATGCCAATGAATT
1 TATTCACTAAACTATGAATGCCAATGAATT
41360014 TA
1 TA
41360016 ACTTCTACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (30 bp):
TATTCACTAAACTATGAATGCCAATGAATT
Found at i:41362363 original size:25 final size:23
Alignment explanation
Indices: 41362321--41362380 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 23
41362311 TGCTAGTTAC
*
41362321 TAATATCATGATTTAAATAAACAAA
1 TAATATCAT-ATTCAAATAAA-AAA
* *
41362346 TAATATCATATCTCAAATTAAATA
1 TAATATCATAT-TCAAATAAAAAA
41362370 TATATATCATA
1 TA-ATATCATA
41362381 AAAAAATACT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 6 0.20
25 24 0.80
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (23 bp):
TAATATCATATTCAAATAAAAAA
Found at i:41362749 original size:4 final size:4
Alignment explanation
Indices: 41362742--41362766 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
41362732 TCCATCCATC
41362742 TTCT TTCT TTCT TTCT TTCT TTCT T
1 TTCT TTCT TTCT TTCT TTCT TTCT T
41362767 ATGATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:41365100 original size:22 final size:18
Alignment explanation
Indices: 41365074--41365116 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 18
41365064 TCATAAAAAT
41365074 TAAAAATTATATAAAAGTAAA
1 TAAAAATT-TA-AAAA-TAAA
41365095 TAAAAATTTAAAAATAAA
1 TAAAAATTTAAAAATAAA
41365113 TAAA
1 TAAA
41365117 GAGAGAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.36
19 4 0.18
20 2 0.09
21 8 0.36
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
TAAAAATTTAAAAATAAA
Found at i:41366483 original size:28 final size:28
Alignment explanation
Indices: 41366451--41366515 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
41366441 CGTGTCTATG
41366451 GCCCGTGTCACTCACACGGCCATGACAC
1 GCCCGTGTCACTCACACGGCCATGACAC
*
41366479 GCCCGTGTCCCTCACACGGCCATGACAC
1 GCCCGTGTCACTCACACGGCCATGACAC
*
41366507 ACCCGTGTC
1 GCCCGTGTC
41366516 TAAAAACCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.18, C:0.45, G:0.22, T:0.15
Consensus pattern (28 bp):
GCCCGTGTCACTCACACGGCCATGACAC
Found at i:41367662 original size:99 final size:96
Alignment explanation
Indices: 41367488--41367668 Score: 276
Period size: 96 Copynumber: 1.9 Consensus size: 96
41367478 GGGTACAATA
* * *
41367488 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCAATGCCATGTCCTAGA
1 CTGACGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCAATGCCATGTCCCAGA
41367553 CATGGTCTTACACTGACTATCCAAATCGAGG
66 CATGGTCTTACACTGACTATCCAAATCGAGG
41367584 CTGACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAT-AACCGTGCCAATGCCATGTC
1 CTGACGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CATCAA--GT--CAATGCCATGTC
41367647 CCAGACATGGTCTTACACTGAC
61 CCAGACATGGTCTTACACTGAC
41367669 ACATCCCGTA
Statistics
Matches: 77, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
95 4 0.05
96 38 0.49
97 2 0.03
99 33 0.43
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (96 bp):
CTGACGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCAATGCCATGTCCCAGA
CATGGTCTTACACTGACTATCCAAATCGAGG
Found at i:41382175 original size:124 final size:124
Alignment explanation
Indices: 41381953--41382177 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
41381943 GAATTATGTG
* * * ** * * *
41381953 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
41382018 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACTA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACTA
*
41382077 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
41382142 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
41382178 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACTA
Found at i:41382299 original size:40 final size:40
Alignment explanation
Indices: 41382172--41382299 Score: 161
Period size: 40 Copynumber: 3.2 Consensus size: 40
41382162 ATGCTGGAAA
* *
41382172 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
41382212 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
41382252 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
41382292 TTATATCC
1 TTATATCC
41382300 AGTTGTATTC
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 70 0.95
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:41393305 original size:13 final size:13
Alignment explanation
Indices: 41393287--41393313 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41393277 GGAGCAATCA
41393287 CACACGGGCGTGT
1 CACACGGGCGTGT
41393300 CACACGGGCGTGT
1 CACACGGGCGTGT
41393313 C
1 C
41393314 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:41394780 original size:2 final size:2
Alignment explanation
Indices: 41394773--41394801 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
41394763 CCATTTACTC
41394773 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
41394802 CATCATTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:41398580 original size:79 final size:80
Alignment explanation
Indices: 41398482--41398666 Score: 300
Period size: 79 Copynumber: 2.3 Consensus size: 80
41398472 GCCACTAGCT
* * * *
41398482 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
41398547 -TATAATAACTCGCA
66 ATATAATAACTCGCA
*
41398561 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
*
41398626 ATATAATAGCTCGCA
66 ATATAATAACTCGCA
*
41398641 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41398667 ATTAGCCACT
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
79 60 0.61
80 38 0.39
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:41398666 original size:40 final size:40
Alignment explanation
Indices: 41398482--41398666 Score: 300
Period size: 40 Copynumber: 4.7 Consensus size: 40
41398472 GCCACTAGCT
* * *
41398482 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
41398522 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
41398561 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* *
41398601 CAAACGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
41398641 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41398667 ATTAGCCACT
Statistics
Matches: 138, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 37 0.27
40 101 0.73
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
Found at i:41398687 original size:40 final size:39
Alignment explanation
Indices: 41398482--41398704 Score: 244
Period size: 40 Copynumber: 5.6 Consensus size: 39
41398472 GCCACTAGCT
* *
41398482 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAG--ACTCGCA
*
41398522 CAAATGCCTTCGGGACTTAGCCCGGTATAATA-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-ATAGACTCGCA
41398561 CAAATGCCTTCGGGACTTAGCCCGGATATAATAG-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-AT-ATAGACTCGCA
*
41398601 CAAACGCCTTCGGGACTTAGCCCGGATATAATAG-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-AT-ATAGACTCGCA
* * *
41398641 CGAATGCCTTCGGGACTTAGCCCGGAAT-TAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAG--ACTCGCA
41398681 CAAATG-CTCTCGGGACTT-GCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
41398705 TTATCATCCG
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
37 3 0.02
39 41 0.25
40 118 0.71
41 1 0.01
42 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGACTCGCA
Found at i:41398703 original size:119 final size:119
Alignment explanation
Indices: 41398482--41398704 Score: 306
Period size: 119 Copynumber: 1.9 Consensus size: 119
41398472 GCCACTAGCT
* * * *
41398482 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAACGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
41398547 TATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
66 AATAACAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
* *
41398601 CAAACGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACGAATGCCTTCGGGACTTAGCCCGG
1 CAAACGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
41398666 AATTAGCCACTAGCTCAAATG-CTCTCGGGACTT-GCCCGG
66 AA-TAACAACTAGCACAAATGCCT-TCGGGACTTAGCCCGG
41398705 TTATCATCCG
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
119 68 0.76
120 22 0.24
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (119 bp):
CAAACGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATAACAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
Found at i:41406624 original size:40 final size:39
Alignment explanation
Indices: 41406580--41406804 Score: 290
Period size: 40 Copynumber: 5.7 Consensus size: 39
41406570 GCCACTAGCT
*
41406580 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
41406620 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
41406659 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
41406699 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
41406739 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
41406779 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
41406805 TATCATCCGA
Statistics
Matches: 167, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 40 0.24
40 127 0.76
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:41410968 original size:16 final size:17
Alignment explanation
Indices: 41410947--41410983 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
41410937 TTCTTTAGAA
41410947 TTGAG-TAATTTCAAG-T
1 TTGAGTTAATTT-AAGAT
41410963 TTGAGTTAATTTAAGAT
1 TTGAGTTAATTTAAGAT
41410980 TTGA
1 TTGA
41410984 TTTGACGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (17 bp):
TTGAGTTAATTTAAGAT
Found at i:41429026 original size:29 final size:29
Alignment explanation
Indices: 41428987--41429065 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
41428977 CTTAATAATC
*
41428987 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
41429017 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
41429046 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
41429066 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:41438879 original size:23 final size:23
Alignment explanation
Indices: 41438821--41438879 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
41438811 AGAAGAGCCT
*
41438821 TCACAAAGAACCATATCAGGAAGC
1 TCACAAAGAGCC-TATCAGGAAGC
*
41438845 TCACGAAGAGCCTATCAGGAAGC
1 TCACAAAGAGCCTATCAGGAAGC
*
41438868 TCACAAATAGCC
1 TCACAAAGAGCC
41438880 ATGTAATGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 21 0.68
24 10 0.32
ACGTcount: A:0.41, C:0.27, G:0.19, T:0.14
Consensus pattern (23 bp):
TCACAAAGAGCCTATCAGGAAGC
Found at i:41440975 original size:21 final size:22
Alignment explanation
Indices: 41440949--41440989 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
41440939 CACTAGACAT
41440949 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
41440970 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
41440990 ACCAATTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:41449154 original size:26 final size:25
Alignment explanation
Indices: 41449124--41449197 Score: 103
Period size: 26 Copynumber: 2.9 Consensus size: 25
41449114 AATTTTCTTG
*
41449124 AAATTTTATTAGGAGTAAAATTGTCA
1 AAATTTTACTAGG-GTAAAATTGTCA
* *
41449150 AAATTTTACCAGGGGTAAAATTATCA
1 AAATTTTACTA-GGGTAAAATTGTCA
41449176 AAATTTTACTAGGGTAAAATTG
1 AAATTTTACTAGGGTAAAATTG
41449198 GGGTGAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.24
26 30 0.71
27 2 0.05
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (25 bp):
AAATTTTACTAGGGTAAAATTGTCA
Found at i:41450910 original size:2 final size:2
Alignment explanation
Indices: 41450903--41450932 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
41450893 CGGCTCTTGC
41450903 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41450933 TTGCACGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41451724 original size:40 final size:38
Alignment explanation
Indices: 41451644--41451823 Score: 184
Period size: 39 Copynumber: 4.6 Consensus size: 38
41451634 AATGATGTCG
* * *
41451644 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCC
1 GGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCC
* *
41451683 GGACTAAGATCCGAAGGCATTTGTGCGATTTACTAATTCC
1 GG-CTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
41451723 GGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 -GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
41451762 GGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATAA-CC
1 GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
41451801 GGGCTATGTCCCGAAGGCATTTG
1 -GGCTAAGT-CCGAAGGCATTTG
41451824 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 14, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
38 6 0.05
39 56 0.47
40 48 0.40
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (38 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:41451741 original size:39 final size:40
Alignment explanation
Indices: 41451642--41451842 Score: 225
Period size: 40 Copynumber: 5.1 Consensus size: 40
41451632 CGAATGATGT
* *
41451642 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATC
* *
41451682 CGGACTAAGAT-CCGAAGGCATTTGTGCGATTTACTA-ATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TC
*
41451722 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
41451761 C-GGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* **
41451800 CGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
41451840 CGG
1 CGG
41451843 TTAAATTCGA
Statistics
Matches: 137, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
38 6 0.04
39 58 0.42
40 65 0.47
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:41451841 original size:79 final size:78
Alignment explanation
Indices: 41451642--41451855 Score: 213
Period size: 79 Copynumber: 2.7 Consensus size: 78
41451632 CGAATGATGT
** * * * *
41451642 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTATATCCGG-TTAAGATCCGAAGGCATTTA
* *
41451706 TGCGATTTACTAATTC
63 TGCGAGTTACTAATAC
** *
41451722 CGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGTTAAG-TCCCGAAGGCATTTATG
1 CGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGTTAAGAT-CCGAAGGCATTTATG
41451786 CGAGTTACT-ATAAC
65 CGAGTTACTAAT-AC
* *
41451800 CGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAA-ATTCGAAGG
1 CGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTATATCCGGTTAAGATCCGAAGG
41451856 TACGTGATTC
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
77 3 0.03
78 43 0.37
79 54 0.47
80 16 0.14
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (78 bp):
CGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGTTAAGATCCGAAGGCATTTATGC
GAGTTACTAATAC
Found at i:41458282 original size:802 final size:802
Alignment explanation
Indices: 41456738--41458346 Score: 3112
Period size: 802 Copynumber: 2.0 Consensus size: 802
41456728 AATTCACCCG
* *
41456738 GGGAGTACGAAAATGTACAATGATCTGAGACGCTAGTTTTGGTGGCATGGTATGAAACGAGACAT
1 GGGAGTACGAAAATGTACAACGATCTGAGACGCCAGTTTTGGTGGCATGGTATGAAACGAGACAT
41456803 TTCCGATTTTGTTTCGAAGTGTTTAATATGTCAGCAAGTAAAGGCGGAACATCAAGCGCCTACGG
66 TTCCGATTTTGTTTCGAAGTGTTTAATATGTCAGCAAGTAAAGGCGGAACATCAAGCGCCTACGG
41456868 GTTTACTCCAGCCAATCATGATACCTGAATGGAAATGGGATCGAGTCACGATGGATTTCGTATCT
131 GTTTACTCCAGCCAATCATGATACCTGAATGGAAATGGGATCGAGTCACGATGGATTTCGTATCT
*
41456933 GGGTTGCCAGTATCGGCAAGTAAGAAAGATGCGATTTGGGTTGTTGTGGATAGACTGACTAAGTC
196 GGGTTGCCAGTATCGGCAAGTAAGAAAGATACGATTTGGGTTGTTGTGGATAGACTGACTAAGTC
41456998 GGCTCACTTTATCCCCATACGTACGGATTTTTCATTGGATAAACTAGCTGAATTGTATATTTCTC
261 GGCTCACTTTATCCCCATACGTACGGATTTTTCATTGGATAAACTAGCTGAATTGTATATTTCTC
*
41457063 ATATAGTGAGATTACACGGGGTACCTATTTCTAACGTGTCGGATAGAGATCCGAGATTCACCTCG
326 AGATAGTGAGATTACACGGGGTACCTATTTCTAACGTGTCGGATAGAGATCCGAGATTCACCTCG
41457128 CGATTTTGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACTGCTTTTCATCC
391 CGATTTTGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACTGCTTTTCATCC
41457193 ACAAACCGATGGTCAATCCGAGCGGATAATTCAGATACTTGAAGACATGATGAGATGTTGCATCC
456 ACAAACCGATGGTCAATCCGAGCGGATAATTCAGATACTTGAAGACATGATGAGATGTTGCATCC
41457258 TCGAGTTTAGTGGTTCGTGGGAGCAGTATTTACCTTTGATTGAATTTGCTTACAACAATAATTTT
521 TCGAGTTTAGTGGTTCGTGGGAGCAGTATTTACCTTTGATTGAATTTGCTTACAACAATAATTTT
41457323 CAATCAAGTATTAAGATGGCACCTTACGAGGCTTTGTACGGCGTAAATGCCGTACGCCATTGTTT
586 CAATCAAGTATTAAGATGGCACCTTACGAGGCTTTGTACGGCGTAAATGCCGTACGCCATTGTTT
41457388 TGGACCGAGCTCGGTGAGAGTAAAATTTTCGGAGTGGATTTGATTAAAGATGCTGAACAGAAAGT
651 TGGACCGAGCTCGGTGAGAGTAAAATTTTCGGAGTGGATTTGATTAAAGATGCTGAACAGAAAGT
41457453 AAGAATAATTCGTGAAAGTCTGAAGGCAGCATCAGATCGTCAGAAGTCGTATGCGGATTTAAAAC
716 AAGAATAATTCGTGAAAGTCTGAAGGCAGCATCAGATCGTCAGAAGTCGTATGCGGATTTAAAAC
*
41457518 GAAGAGATATTGAGTATCAGGT
781 AAAGAGATATTGAGTATCAGGT
41457540 GGGAGTACGAAAATGTACAACGATCTGAGACGCCAGTTTTGGTGGCATGGTATGAAACGAGACAT
1 GGGAGTACGAAAATGTACAACGATCTGAGACGCCAGTTTTGGTGGCATGGTATGAAACGAGACAT
41457605 TTCCGATTTTGTTTCGAAGTGTTTAATATGTCAGCAAGTAAAGGCGGAACATCAAGCGCCTACGG
66 TTCCGATTTTGTTTCGAAGTGTTTAATATGTCAGCAAGTAAAGGCGGAACATCAAGCGCCTACGG
41457670 GTTTACTCCAGCCAATCATGATACCTGAATGGAAATGGGATCGAGTCACGATGGATTTCGTATCT
131 GTTTACTCCAGCCAATCATGATACCTGAATGGAAATGGGATCGAGTCACGATGGATTTCGTATCT
41457735 GGGTTGCCAGTATCGGCAAGTAAGAAAGATACGATTTGGGTTGTTGTGGATAGACTGACTAAGTC
196 GGGTTGCCAGTATCGGCAAGTAAGAAAGATACGATTTGGGTTGTTGTGGATAGACTGACTAAGTC
41457800 GGCTCACTTTATCCCCATACGTACGGATTTTTCATTGGATAAACTAGCTGAATTGTATATTTCTC
261 GGCTCACTTTATCCCCATACGTACGGATTTTTCATTGGATAAACTAGCTGAATTGTATATTTCTC
* *
41457865 AGATTGTGAGATTACACGGGGTACCTATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCG
326 AGATAGTGAGATTACACGGGGTACCTATTTCTAACGTGTCGGATAGAGATCCGAGATTCACCTCG
41457930 CGATTTTGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACTGCTTTTCATCC
391 CGATTTTGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACTGCTTTTCATCC
*
41457995 ACAAACCGATGGTCAATCCGAGCGGATAATTCAGATACTTGAGGACATGATGAGATGTTGCATCC
456 ACAAACCGATGGTCAATCCGAGCGGATAATTCAGATACTTGAAGACATGATGAGATGTTGCATCC
* *
41458060 TCGAGTTTAGTGGTTCGTGGGAGCGGTATTTACCTTTGATTGAA-TTGCTTACAACAATAGTTTT
521 TCGAGTTTAGTGGTTCGTGGGAGCAGTATTTACCTTTGATTGAATTTGCTTACAACAATAATTTT
41458124 CAATCAAGTATTAAGATGGCACCTTACGAGGCTTTGTACGGGCGTAAATGCCGTACGCCATTGTT
586 CAATCAAGTATTAAGATGGCACCTTACGAGGCTTTGTAC-GGCGTAAATGCCGTACGCCATTGTT
41458189 TTGGACCGAGCTCGGTGAGAGTAAAATTTTCGGAGTGGATTTGATTAAAGATGCTGAACAGAAAG
650 TTGGACCGAGCTCGGTGAGAGTAAAATTTTCGGAGTGGATTTGATTAAAGATGCTGAACAGAAAG
41458254 TAAGAATAATTCGTGAAAGTCTGAAGGCAGCATCAGATCGTCAGAAGTCGTATGCGGATTTAAAA
715 TAAGAATAATTCGTGAAAGTCTGAAGGCAGCATCAGATCGTCAGAAGTCGTATGCGGATTTAAAA
41458319 CAAAGAGATATTGAGTATCAGGT
780 CAAAGAGATATTGAGTATCAGGT
41458342 GGGAG
1 GGGAG
41458347 ACAAAGTGTT
Statistics
Matches: 796, Mismatches: 10, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
801 58 0.07
802 738 0.93
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (802 bp):
GGGAGTACGAAAATGTACAACGATCTGAGACGCCAGTTTTGGTGGCATGGTATGAAACGAGACAT
TTCCGATTTTGTTTCGAAGTGTTTAATATGTCAGCAAGTAAAGGCGGAACATCAAGCGCCTACGG
GTTTACTCCAGCCAATCATGATACCTGAATGGAAATGGGATCGAGTCACGATGGATTTCGTATCT
GGGTTGCCAGTATCGGCAAGTAAGAAAGATACGATTTGGGTTGTTGTGGATAGACTGACTAAGTC
GGCTCACTTTATCCCCATACGTACGGATTTTTCATTGGATAAACTAGCTGAATTGTATATTTCTC
AGATAGTGAGATTACACGGGGTACCTATTTCTAACGTGTCGGATAGAGATCCGAGATTCACCTCG
CGATTTTGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACTGCTTTTCATCC
ACAAACCGATGGTCAATCCGAGCGGATAATTCAGATACTTGAAGACATGATGAGATGTTGCATCC
TCGAGTTTAGTGGTTCGTGGGAGCAGTATTTACCTTTGATTGAATTTGCTTACAACAATAATTTT
CAATCAAGTATTAAGATGGCACCTTACGAGGCTTTGTACGGCGTAAATGCCGTACGCCATTGTTT
TGGACCGAGCTCGGTGAGAGTAAAATTTTCGGAGTGGATTTGATTAAAGATGCTGAACAGAAAGT
AAGAATAATTCGTGAAAGTCTGAAGGCAGCATCAGATCGTCAGAAGTCGTATGCGGATTTAAAAC
AAAGAGATATTGAGTATCAGGT
Found at i:41460777 original size:79 final size:81
Alignment explanation
Indices: 41460641--41460825 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
41460631 TCGAATGATG
*
41460641 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
* *
41460705 TGTGCGATTTACTA-A
66 TATGCGAGTTACTATA
* * **
41460720 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
41460782 TTTATGCGAGTTACTATA
64 TTTATGCGAGTTACTATA
* *
41460800 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41460826 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TATGCGAGTTACTATA
Found at i:41460832 original size:40 final size:39
Alignment explanation
Indices: 41460642--41460825 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
41460632 CGAATGATGT
* * *
41460642 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
41460682 CCGGACTAAGAT-CCGAAGGCATTTGTGCGATTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
41460722 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41460760 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41460801 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41460826 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41460847 original size:79 final size:79
Alignment explanation
Indices: 41460642--41460857 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 79
41460632 CGAATGATGT
* *
41460642 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
* * *
41460705 TGTGCGATTTACTAATT
63 TATGCGAGTTACTAATA
*
41460722 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCATT
41460784 TATGCGAGTTACT-ATAA
63 TATGCGAGTTACTAAT-A
* ** *
41460801 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA-ATTCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGG
41460858 TACGTGATTC
Statistics
Matches: 116, Mismatches: 11, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
78 9 0.08
79 62 0.53
80 45 0.39
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTAT
GCGAGTTACTAATA
Found at i:41465458 original size:76 final size:73
Alignment explanation
Indices: 41465302--41465490 Score: 190
Period size: 75 Copynumber: 2.5 Consensus size: 73
41465292 CAATTTTTTT
* * * *
41465302 TTTATTTTTTTCATTGATTGTAAATAAGTATAGTATT-A-A-G-AAGGCATACTATAGAATACAA
1 TTTAATTTTTTCATAGACTGTAAATAAGTATAATATTGATATGAAAGGC--A--ATAGAATACAA
*
41465363 TACAAACAAAAC
62 AACAAACAAAAC
*
41465375 TTTAATTTTTTTCATAGACTGTAAATAAGTATATATTATTGATATGAAAGGCAATAGAATATAAA
1 TTTAA-TTTTTTCATAGACTGTAAATAAGTATA-A-TATTGATATGAAAGGCAATAGAATACAAA
*
41465440 ACAAAC-AAAT
63 ACAAACAAAAC
* *
41465450 TTTCAATTTTTTCGTAGATTGTAAATAAGTATAATATTGAT
1 TTT-AATTTTTTCATAGACTGTAAATAAGTATAATATTGAT
41465491 GTAAAATACA
Statistics
Matches: 99, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
73 11 0.11
74 26 0.26
75 31 0.31
76 22 0.22
77 1 0.01
78 2 0.02
79 1 0.01
80 5 0.05
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (73 bp):
TTTAATTTTTTCATAGACTGTAAATAAGTATAATATTGATATGAAAGGCAATAGAATACAAAACA
AACAAAAC
Found at i:41473171 original size:21 final size:20
Alignment explanation
Indices: 41473124--41473171 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
41473114 TATGGTGTAT
41473124 TTTTTTAGTTAGAATAAATCA
1 TTTTTTAGTTAGAATAAAT-A
*
41473145 ATTTTTAGTTAGAA-AATATA
1 TTTTTTAGTTAGAATAA-ATA
41473165 TTATTTT
1 TT-TTTT
41473172 TTACAACCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (20 bp):
TTTTTTAGTTAGAATAAATA
Found at i:41479245 original size:21 final size:21
Alignment explanation
Indices: 41479221--41479260 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
41479211 CTTCCCTCGC
*
41479221 TGCTGCCTCCTCTTTAAGTGA
1 TGCTGCCTCCGCTTTAAGTGA
41479242 TGCTGCCTCCGCTTTAAGT
1 TGCTGCCTCCGCTTTAAGT
41479261 TGAGCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.30, G:0.20, T:0.38
Consensus pattern (21 bp):
TGCTGCCTCCGCTTTAAGTGA
Found at i:41479648 original size:13 final size:14
Alignment explanation
Indices: 41479622--41479650 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
41479612 ACTAATGATG
41479622 AATTAAACCATTAT
1 AATTAAACCATTAT
41479636 AATTAAA-CATTAT
1 AATTAAACCATTAT
41479649 AA
1 AA
41479651 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:41484826 original size:36 final size:36
Alignment explanation
Indices: 41484794--41484968 Score: 298
Period size: 36 Copynumber: 4.9 Consensus size: 36
41484784 AAGTAAGTTT
41484794 TGTAAGTTATGATATGATATACATTTATGTAAGATA
1 TGTAAGTTATGATATGATATACATTTATGTAAGATA
*
41484830 TGTAAGTTATGGTATGATATACATTTATGTAAGATA
1 TGTAAGTTATGATATGATATACATTTATGTAAGATA
41484866 TGTAAGTTATGATATGATATACATTTATGTAA-AGTA
1 TGTAAGTTATGATATGATATACATTTATGTAAGA-TA
* *
41484902 TGTGAGTTATGATATGATATACATTTATGTAAGGTA
1 TGTAAGTTATGATATGATATACATTTATGTAAGATA
*
41484938 TGTAAGTTATGATATGATATATATTTATGTA
1 TGTAAGTTATGATATGATATACATTTATGTA
41484969 TTTTGTAAGT
Statistics
Matches: 131, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
35 1 0.01
36 130 0.99
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (36 bp):
TGTAAGTTATGATATGATATACATTTATGTAAGATA
Found at i:41484985 original size:43 final size:43
Alignment explanation
Indices: 41484924--41485032 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
41484914 TATGATATAC
*
41484924 ATTTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGT
1 ATTT-TGTAAGGTATGTAAGTTATGAAATGATATATATTTATGT
* * *
41484968 ATTTTGTAAGTTTTGTAAGTTATTAAATGATATATATTTATGT
1 ATTTTGTAAGGTATGTAAGTTATGAAATGATATATATTTATGT
* * *
41485011 ATTATGTAAGATATATAAGTTA
1 ATTTTGTAAGGTATGTAAGTTA
41485033 ATCATTTATA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 53 0.93
44 4 0.07
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (43 bp):
ATTTTGTAAGGTATGTAAGTTATGAAATGATATATATTTATGT
Found at i:41485895 original size:24 final size:24
Alignment explanation
Indices: 41485852--41485898 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
41485842 TTAACTTAAA
* * *
41485852 TGATAAAACGGATGATAATATTTG
1 TGATAAAACGAACGAGAATATTTG
41485876 TGATAAAACGAACGAGAATATTT
1 TGATAAAACGAACGAGAATATTT
41485899 CAATAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (24 bp):
TGATAAAACGAACGAGAATATTTG
Found at i:41487890 original size:115 final size:114
Alignment explanation
Indices: 41487753--41487963 Score: 266
Period size: 115 Copynumber: 1.8 Consensus size: 114
41487743 ATGTTTGCAG
* * * **
41487753 CGTTTTTACCCTAGCGCAGCTAAAAGGGAAACCTATTGTGGCGTTTTAC-CTAAAATGCCACTAA
1 CGTTTATACCCTAGCACAGCTAAAAAGG-AACCTATTGCAGCGTTTTACAC-AAAATGCCACTAA
41487817 -AAATCCAA-AAAAAAGTCGCCGTTTTGATTTAAACAAAATAACCTTTAGCGA
64 CAAATCCAATAAAAAAGT-GCCGTTTTG-TTTAAACAAAATAACCTTTAGCGA
* * * *
41487868 CGTTTATACCCTTGCACCGCTAAAAATGCACCTATTGCAGCGTTTTACACAAAATGCCACTAACA
1 CGTTTATACCCTAGCACAGCTAAAAAGGAACCTATTGCAGCGTTTTACACAAAATGCCACTAACA
**
41487933 AATCCAATAAAACGGTGCCGTTTTGTTTAAA
66 AATCCAATAAAAAAGTGCCGTTTTGTTTAAA
41487964 ACATAATGAT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
114 36 0.44
115 40 0.49
116 6 0.07
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (114 bp):
CGTTTATACCCTAGCACAGCTAAAAAGGAACCTATTGCAGCGTTTTACACAAAATGCCACTAACA
AATCCAATAAAAAAGTGCCGTTTTGTTTAAACAAAATAACCTTTAGCGA
Done.