Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 104 of 218
Found at i:30159595 original size:47 final size:47
Alignment explanation
Indices: 30159517--30159730 Score: 329
Period size: 47 Copynumber: 4.5 Consensus size: 47
30159507 CCCTTCGGGA
* * * * * *
30159517 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30159564 CGTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30159611 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30159658 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30159707 CTTATCACATATATACATTTTCAC
1 CTTATCACATATATACACTTTCAC
30159731 GTATACACAC
Statistics
Matches: 154, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 107 0.69
49 47 0.31
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30159714 original size:96 final size:94
Alignment explanation
Indices: 30159517--30159730 Score: 329
Period size: 96 Copynumber: 2.3 Consensus size: 94
30159507 CCCTTCGGGA
* * * * *
30159517 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCGTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCGTATCACATATATACAC
30159582 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
30159611 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCGTATCAC--ATATATAC
30159676 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
30159707 CTTATCACATATATACATTTTCAC
1 CTTATCACATATATACACTTTCAC
30159731 GTATACACAC
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
94 47 0.43
96 62 0.57
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCGTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:30163058 original size:23 final size:24
Alignment explanation
Indices: 30163014--30163058 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
30163004 AAAATCCTAC
*
30163014 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
30163038 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
30163059 GTGGGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.20
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:30169954 original size:26 final size:26
Alignment explanation
Indices: 30169918--30169973 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
30169908 CAGTAATTTT
*
30169918 AGAATATCATAACATATATTAGTTTC
1 AGAATATCATAACATATATCAGTTTC
* *
30169944 AGAATATCATAGCATGTATCAGTTTC
1 AGAATATCATAACATATATCAGTTTC
30169970 AGAA
1 AGAA
30169974 CACTTACAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (26 bp):
AGAATATCATAACATATATCAGTTTC
Found at i:30176133 original size:41 final size:41
Alignment explanation
Indices: 30176084--30176302 Score: 213
Period size: 41 Copynumber: 5.3 Consensus size: 41
30176074 TATAAATGAG
* * *
30176084 CTTTAGCGGCATTTTTGAAGAGGTGCCACTAATACTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCACTAATACTCGGGT
* * *
30176125 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCACTAATACTCGGGT
** * * **
30176166 CTTTAGCGGCGTTTTTGAAGAAGCAACGCTAATTCTCAAGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCACTAATACTCGGGT
* * * * * * *
30176207 CTTTAGCGACTTTTTTAAAAAAGCGCCGCTAATGCTCGCGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCACTAATACTCGGGT
* * * **
30176248 CTTTAGTGGCGTTTTTAAAGAAGCGCCGCTAATTTTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCACTAATACTCGGGT
*
30176289 CTTTAGCGACGTTT
1 CTTTAGCGGCGTTT
30176303 ATAGAAAAAC
Statistics
Matches: 148, Mismatches: 30, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 148 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAGAAGCGCCACTAATACTCGGGT
Found at i:30176185 original size:82 final size:82
Alignment explanation
Indices: 30176084--30176316 Score: 297
Period size: 82 Copynumber: 2.8 Consensus size: 82
30176074 TATAAATGAG
* * * * * *
30176084 CTTTAGCGGCATTTTTGAAGAGGTGCCACTAATACTCGGGTCTTTAGCGGCGTTTTTGAAAAAGC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATTCTCGGGTCTTTAGCGACGTTTTTGAAAAAGC
*
30176149 GCCGCTAATGCTCGGGT
66 GCCGCTAATGCTCGCGT
** ** * *
30176166 CTTTAGCGGCGTTTTTGAAGAAGCAACGCTAATTCTCAAGTCTTTAGCGACTTTTTTAAAAAAGC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATTCTCGGGTCTTTAGCGACGTTTTTGAAAAAGC
30176231 GCCGCTAATGCTCGCGT
66 GCCGCTAATGCTCGCGT
* * * *
30176248 CTTTAGTGGCGTTTTTAAAGAAGCGCCGCTAATTTTCGGGTCTTTAGCGACGTTTATAGAAAAA-
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATTCTCGGGTCTTTAGCGACGTTT-TTGAAAAAG
30176312 CGCCG
65 CGCCG
30176317 TAAAAAATAT
Statistics
Matches: 127, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
82 121 0.95
83 6 0.05
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATTCTCGGGTCTTTAGCGACGTTTTTGAAAAAGC
GCCGCTAATGCTCGCGT
Found at i:30181727 original size:129 final size:127
Alignment explanation
Indices: 30181444--30181733 Score: 391
Period size: 129 Copynumber: 2.3 Consensus size: 127
30181434 AGATTATGTT
* * *
30181444 TTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGTTTGTCTTTAGCGGCATTTGTGATAAAAGT
1 TTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAAAGGTTTGTCTTTAGCGGCATTTATGAGAAAAGT
*
30181509 GCCGCTAAAGGTTGTGGTATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCGTGGTC
66 GCCGCTAAAGGTCGTGGTATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCGTGGTC
* * ** * * * *
30181571 TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTTTTTAGCGGCGTTTATGGGGAAA
1 TTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAAAGGT-TT-GTCTTTAGCGGCATTTATGAGAAAA
* * * *
30181636 TTGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
64 GTGCCGCTAAAGGTCGTGGTATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCGTGGTC
* * *
30181700 TTTCGCGGCGTTTTTTCTAAAAACGCCGCTAAAG
1 TTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAAAG
30181734 TTAGCAATGC
Statistics
Matches: 138, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
127 31 0.22
128 2 0.01
129 105 0.76
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.30
Consensus pattern (127 bp):
TTTAGCGGCGTTTTTGCTAAAAGCGCCGCTAAAGGTTTGTCTTTAGCGGCATTTATGAGAAAAGT
GCCGCTAAAGGTCGTGGTATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCGTGGTC
Found at i:30181733 original size:43 final size:43
Alignment explanation
Indices: 30181444--30181712 Score: 337
Period size: 43 Copynumber: 6.3 Consensus size: 43
30181434 AGATTATGTT
* ** *
30181444 TTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGT-TT-GTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* ** * *
30181485 TTTAGCGGCATTTGTGATAAAAGTGCCGCTAAAGGT-TGTGGTA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCT-TGGTC
* *
30181528 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAACGTCGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
30181571 TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * ** *
30181614 TTTAGCGGCGTTTATGGGGAAATTGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
30181657 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
30181700 TTTCGCGGCGTTT
1 TTTAGCGGCGTTT
30181713 TTTCTAAAAA
Statistics
Matches: 195, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
41 32 0.16
42 1 0.01
43 162 0.83
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:30182425 original size:14 final size:15
Alignment explanation
Indices: 30182406--30182445 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
30182396 TGTTTCATAC
*
30182406 TTTTAGATTTTAA-G
1 TTTTAGATTTAAATG
*
30182420 TTTTAGATTTAAATT
1 TTTTAGATTTAAATG
30182435 TTTTAGATTTA
1 TTTTAGATTTA
30182446 GATTTTAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
TTTTAGATTTAAATG
Found at i:30182440 original size:15 final size:15
Alignment explanation
Indices: 30182406--30182451 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
30182396 TGTTTCATAC
* *
30182406 TTTTAGATTTTAA-G
1 TTTTAGATTTAAATT
30182420 TTTTAGATTTAAATT
1 TTTTAGATTTAAATT
*
30182435 TTTTAGATTTAGATT
1 TTTTAGATTTAAATT
30182450 TT
1 TT
30182452 AGGTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTTAGATTTAAATT
Found at i:30184098 original size:62 final size:62
Alignment explanation
Indices: 30184001--30184138 Score: 190
Period size: 62 Copynumber: 2.2 Consensus size: 62
30183991 CCCCACACAT
* * *
30184001 GGCCTAGACACACACCTATGTGCCTAGTCCGTGTGACCAAAAATACAAACAGTGAGTTCCAC
1 GGCCTGGACACACACCTATGTGCCTAGTCCGTGTGACCAAAAATACAAACAGTAAGTTACAC
* * *
30184063 GGCCTGGACACACGCCTATGT-CCTTAG-CCAGTGTGACCAAAAATACAAATAGTAAGTTACAT
1 GGCCTGGACACACACCTATGTGCC-TAGTCC-GTGTGACCAAAAATACAAACAGTAAGTTACAC
30184125 GGCCTGGACACACA
1 GGCCTGGACACACA
30184139 TCCGTTCGCT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
61 4 0.06
62 63 0.94
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (62 bp):
GGCCTGGACACACACCTATGTGCCTAGTCCGTGTGACCAAAAATACAAACAGTAAGTTACAC
Found at i:30186110 original size:119 final size:119
Alignment explanation
Indices: 30185899--30186144 Score: 456
Period size: 119 Copynumber: 2.1 Consensus size: 119
30185889 TTGTTAACAT
* *
30185899 AAAACTCGTAAATAACTTAAACTACTTAATAATTATTAAAATTTTGGAATAATAAAATAATAAAA
1 AAAACTCGTAAATAACTTAAACTACTTAAAAATTATTAAAAATTTGGAATAATAAAATAATAAAA
* *
30185964 TAATAAGAGCTGATAAATACAATATTGGGCTCATATATAATAAAAATTAAGTCC
66 TAATAAGAGCTGATAAATAAAATATTGGGCTCATATATAATAAAAAGTAAGTCC
30186018 AAAACTCGTAAATAACTTAAACTACTTAAAAATTATTAAAAATTTGGAATAATAAAATAATAAAA
1 AAAACTCGTAAATAACTTAAACTACTTAAAAATTATTAAAAATTTGGAATAATAAAATAATAAAA
30186083 TAATAAGAGCTGATAAATAAAATATTGGGCTCATATATAATAAAAAGTAAGTCC
66 TAATAAGAGCTGATAAATAAAATATTGGGCTCATATATAATAAAAAGTAAGTCC
30186137 AAAACTCG
1 AAAACTCG
30186145 AACCCAATAT
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 123 1.00
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.29
Consensus pattern (119 bp):
AAAACTCGTAAATAACTTAAACTACTTAAAAATTATTAAAAATTTGGAATAATAAAATAATAAAA
TAATAAGAGCTGATAAATAAAATATTGGGCTCATATATAATAAAAAGTAAGTCC
Found at i:30187947 original size:95 final size:95
Alignment explanation
Indices: 30187780--30187955 Score: 282
Period size: 95 Copynumber: 1.9 Consensus size: 95
30187770 TTACTTTCTT
* * *
30187780 CTCTAGTTGGATATTTAATTAGACATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACAT
1 CTCTAGTTGAATATTTAATTAGACATTGGAAACCCTTATGATATTTTGAACTACACCAATAACAG
*
30187845 TGCACAAAAGGTGATATTTCAATCGTATTC
66 TGAACAAAAGGTGATATTTCAATCGTATTC
* *
30187875 CTCTATTTGAATATTTAATTGGACATTGGAAAGCCC-TATGATATTTTGAACTACACCAATAACA
1 CTCTAGTTGAATATTTAATTAGACATTGGAAA-CCCTTATGATATTTTGAACTACACCAATAACA
30187939 GTGAACAAAAGGTGATA
65 GTGAACAAAAGGTGATA
30187956 GCTCAATTGT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
95 71 0.96
96 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (95 bp):
CTCTAGTTGAATATTTAATTAGACATTGGAAACCCTTATGATATTTTGAACTACACCAATAACAG
TGAACAAAAGGTGATATTTCAATCGTATTC
Found at i:30191887 original size:15 final size:15
Alignment explanation
Indices: 30191869--30191903 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
30191859 TATACATATC
30191869 ATATTATAGCATAAT
1 ATATTATAGCATAAT
30191884 ATATTATAGCATAAT
1 ATATTATAGCATAAT
30191899 ATATT
1 ATATT
30191904 TTAATATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (15 bp):
ATATTATAGCATAAT
Found at i:30193890 original size:25 final size:25
Alignment explanation
Indices: 30193856--30193909 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
30193846 GGTTTAAACT
*
30193856 GGTTCGTACTCGAAGTGCGATTCGA
1 GGTTCGTACTCAAAGTGCGATTCGA
*
30193881 GGTTCGTACTCAAAGTGTGATTCGA
1 GGTTCGTACTCAAAGTGCGATTCGA
30193906 GGTT
1 GGTT
30193910 AGCCACTTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (25 bp):
GGTTCGTACTCAAAGTGCGATTCGA
Found at i:30194215 original size:22 final size:22
Alignment explanation
Indices: 30194186--30194235 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
30194176 TATGTAAGTG
* * *
30194186 ATTTTGGC-GGTTTACTGCATT
1 ATTTTGGCAGCTTGACTACATT
30194207 ATTTCTGGCAGCTTGACTACATT
1 ATTT-TGGCAGCTTGACTACATT
30194230 ATTTTG
1 ATTTTG
30194236 AAAAGTAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 4 0.17
22 6 0.25
23 14 0.58
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.46
Consensus pattern (22 bp):
ATTTTGGCAGCTTGACTACATT
Found at i:30199388 original size:80 final size:79
Alignment explanation
Indices: 30199194--30199655 Score: 248
Period size: 79 Copynumber: 5.7 Consensus size: 79
30199184 ATTAAATCAA
* * * * *
30199194 AATAAAATTTGTTAAACGGCGGGAATAAATCCCGAAATAGATTTTATTTAATTTTAATTTCTCGT
1 AATAAAATTCGTTGAACGGAGGGAATAAATCCCGAAACAGA---T-TTT-A-TTTAA-TTCTC-A
* *
30199259 TTTGGCAACAAAATAAAAAATAG
58 TTTGGAAATAAAAT-AAAAATAG
* * * **
30199282 -ATAAAATCTAG-TGAATGGCA-AGAATAAATCCCGAAACAGATTTTATTTAATTCTTGTTTGGA
1 AATAAAAT-TCGTTGAACGG-AGGGAATAAATCCCGAAACAGATTTTATTTAATTCTCATTTGGA
* *
30199344 AATCAAATAAAAAATGG
64 AATAAAAT-AAAAATAG
* * * *
30199361 AATAAAGTTCGTTGAGCGGCGGGAATAAATCCTGAAACAGATTTTATTTAACTTTAATTCTCATT
1 AATAAAATTCGTTGAACGGAGGGAATAAATCCCGAAACAGA---T-TTT-A-TTTAATTCTCATT
30199426 TGGAAATAAAATAAAAATAG
60 TGGAAATAAAATAAAAATAG
* * * * * * *
30199446 AATAAAATTCGTTGAACTGAGGGAATAAATCCCGAAATAGATTTTATTCACTTTTAATTTGAAAA
1 AATAAAATTCGTTGAACGGAGGGAATAAATCCCGAAACAGATTTTATTTAATTCTCATTTGGAAA
*
30199511 TAAAAT-CAAAT--
66 TAAAATAAAAATAG
* * * ** * * *
30199522 AA-AATA-T-GTTAAAC-GATAGGAATAAATTTCGAAACATATTTTATTTAATTTTAATATTCGT
1 AATAAAATTCGTTGAACGGA-GGGAATAAATCCCGAAACAGATTTTATTTAATTCTCAT-TT-G-
30199583 TTAGAAATAAAA-AAATAA-AG
62 ---GAAATAAAATAAA-AATAG
* * * *
30199603 AATAAAATTTGTTGAACGGCA-GGAATAAATCTCAAAATAGATTTTATTTAATT
1 AATAAAATTCGTTGAACGG-AGGGAATAAATCCCGAAACAGATTTTATTTAATT
30199656 TAAAATTTTA
Statistics
Matches: 295, Mismatches: 52, Indels: 58
0.73 0.13 0.14
Matches are distributed among these distances:
72 2 0.01
73 37 0.13
74 3 0.01
75 4 0.01
76 2 0.01
78 4 0.01
79 50 0.17
80 36 0.12
81 10 0.03
82 5 0.02
83 5 0.02
84 38 0.13
85 44 0.15
86 23 0.08
87 30 0.10
88 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (79 bp):
AATAAAATTCGTTGAACGGAGGGAATAAATCCCGAAACAGATTTTATTTAATTCTCATTTGGAAA
TAAAATAAAAATAG
Found at i:30199502 original size:85 final size:84
Alignment explanation
Indices: 30199194--30199504 Score: 303
Period size: 85 Copynumber: 3.7 Consensus size: 84
30199184 ATTAAATCAA
* * * * *
30199194 AATAAAATTTGTTAAACGGCGGGAATAAATCCCGAAATAGATTTTATTTAATTTTAATTTCTCGT
1 AATAAAATTCGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTA-TT-ACTTTAA-TTCTC-A
* *
30199259 TTTGGCAACAAAATAAAAAATAG
62 TTTGGAAATAAAATAAAAAATAG
* * ** **
30199282 -ATAAAATCTAG-TGAATGGCAAGAATAAATCCCGAAACAGA--TT-TTA-TTTAATTCTTGTTT
1 AATAAAAT-TCGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTACTTTAATTCTCATTT
* *
30199341 GGAAATCAAATAAAAAATGG
65 GGAAATAAAATAAAAAATAG
* * *
30199361 AATAAAGTTCGTTGAGCGGCGGGAATAAATCCTGAAACAGATTTTATTTAACTTTAATTCTCATT
1 AATAAAATTCGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTA-TT-ACTTTAATTCTCATT
30199426 TGGAAATAAAAT-AAAAATAG
64 TGGAAATAAAATAAAAAATAG
* * *
30199446 AATAAAATTCGTTGAACTGAGGGAATAAATCCCGAAATAGATTTTATTCACTTTTAATT
1 AATAAAATTCGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATT-AC-TTTAATT
30199505 TGAAAATAAA
Statistics
Matches: 183, Mismatches: 30, Indels: 23
0.78 0.13 0.10
Matches are distributed among these distances:
79 21 0.11
80 34 0.19
81 5 0.03
82 3 0.02
83 2 0.01
84 6 0.03
85 57 0.31
86 22 0.12
87 31 0.17
88 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.33
Consensus pattern (84 bp):
AATAAAATTCGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTACTTTAATTCTCATTTG
GAAATAAAATAAAAAATAG
Found at i:30200341 original size:25 final size:25
Alignment explanation
Indices: 30200313--30200363 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
30200303 ATATTTATGA
* *
30200313 AAAGTCAAATATATGGGTATCAAAT
1 AAAGTCAAAGATATGAGTATCAAAT
30200338 AAAGTCAAAGATATGAGTATCAAAT
1 AAAGTCAAAGATATGAGTATCAAAT
30200363 A
1 A
30200364 TTGGAAAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.25
Consensus pattern (25 bp):
AAAGTCAAAGATATGAGTATCAAAT
Found at i:30200372 original size:30 final size:31
Alignment explanation
Indices: 30200338--30200398 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
30200328 GGTATCAAAT
30200338 AAAGTCAAAGATATGAGTATC-AAATATTGG
1 AAAGTCAAAGATATGAGTATCGAAATATTGG
* *
30200368 AAAGTCAAAGATATGGGTATCGAGATATTGG
1 AAAGTCAAAGATATGAGTATCGAAATATTGG
30200399 TATAAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 20 0.71
31 8 0.29
ACGTcount: A:0.43, C:0.07, G:0.25, T:0.26
Consensus pattern (31 bp):
AAAGTCAAAGATATGAGTATCGAAATATTGG
Found at i:30205003 original size:25 final size:25
Alignment explanation
Indices: 30204969--30205019 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
30204959 ATATTTATGG
30204969 AAAGTCAAAGATATAGGTATCAAAT
1 AAAGTCAAAGATATAGGTATCAAAT
*
30204994 AAAGTCAAAGATATGGGTATCAAAT
1 AAAGTCAAAGATATAGGTATCAAAT
30205019 A
1 A
30205020 TTGGAAAGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.24
Consensus pattern (25 bp):
AAAGTCAAAGATATAGGTATCAAAT
Found at i:30205030 original size:30 final size:30
Alignment explanation
Indices: 30204966--30205054 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 30
30204956 TCCATATTTA
*
30204966 TGGAAAGTCAAAGATATAGGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
30204993 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
30205021 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
30205052 TGG
1 TGG
30205055 TATAAGAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
25 20 0.37
26 2 0.04
27 2 0.04
28 1 0.02
30 21 0.39
31 8 0.15
ACGTcount: A:0.43, C:0.07, G:0.25, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:30210159 original size:18 final size:18
Alignment explanation
Indices: 30210121--30210156 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
30210111 TTATTATTTT
*
30210121 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
30210139 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
30210157 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:30210168 original size:31 final size:29
Alignment explanation
Indices: 30210131--30210196 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
30210121 TAAAATTTAC
*
30210131 TATTAAAATAA-AATTTAAATATTAAATAATT
1 TATTAAAATAATAAATT--ATATT-AATAATT
30210162 TATTAAAAATAATAAATTATATTAATAATT
1 TATT-AAAATAATAAATTATATTAATAATT
30210192 TATTA
1 TATTA
30210197 TATGACTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 1 0.03
30 11 0.34
31 9 0.28
32 7 0.22
33 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TATTAAAATAATAAATTATATTAATAATT
Found at i:30210291 original size:10 final size:9
Alignment explanation
Indices: 30210262--30210287 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30210252 ATTTTATATT
30210262 AATATTTTA
1 AATATTTTA
30210271 AATATTTTA
1 AATATTTTA
30210280 AATATTTT
1 AATATTTT
30210288 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:30211518 original size:416 final size:416
Alignment explanation
Indices: 30210747--30211576 Score: 1606
Period size: 416 Copynumber: 2.0 Consensus size: 416
30210737 ATTGAGATTG
30210747 AGATTATGAATAACATGAATGGCTAATCCCTTATGGGAGATTAATGAGTGGATGGGGATGTGATT
1 AGATTATGAATAACATGAATGGCTAATCCCTTATGGGAGATTAATGAGTGGATGGGGATGTGATT
30210812 AACAGAGGATTTAGGGTTTCTCGAGAGGATTAGTTGGTATAGATTACGTGTTCTTAAACCACTAG
66 AACAGAGGATTTAGGGTTTCTCGAGAGGATTAGTTGGTATAGATTACGTGTTCTTAAACCACTAG
30210877 GCTTGACAACCATAGGAAGTTATCATAGGTTAGACGAGGTTGGGAGATAAGCCAAACTGAGTAAA
131 GCTTGACAACCATAGGAAGTTATCATAGGTTAGACGAGGTTGGGAGATAAGCCAAACTGAGTAAA
* *
30210942 TTGTAGTTTATTCTGGTTGAGAAAATAAGGTCAAGAGATAAGCGAGTATCAACCGATCGATTAAT
196 TTGTAGTTTATTCTAGTTGAGAAAATAAGGTCAAGAGATAAGCGAGTATCAACCAATCGATTAAT
* *
30211007 TAGTTAGAGGTCGGGAGGTAATAATTGGTTAATCAATAGCTAATCCACCCTAAAACCCTAATTTA
261 TAGTTAGAGGTCGGGAGGTAATAATTAGTTAATCAATAGCTAATCCACCCTAAAACCCTAATCTA
30211072 AAGATAATTACAAACCCTAAAGCGAGTTAATCTTCCTGATTGATTTATTGATTTAATTCATTTGT
326 AAGATAATTACAAACCCTAAAGCGAGTTAATCTTCCTGATTGATTTATTGATTTAATTCATTTGT
30211137 TTATTTTTCATATTTAATTATTTTTC
391 TTATTTTTCATATTTAATTATTTTTC
30211163 AGATTATGAATAACATGAATGGCTAATCCCTTATGGGAGATTAATGAGTGGATGGGGATGTGATT
1 AGATTATGAATAACATGAATGGCTAATCCCTTATGGGAGATTAATGAGTGGATGGGGATGTGATT
30211228 AACAGAGGATTTAGGGTTTCTCGAGAGGATTAGTTGGTATAGATTACGTGTTCTTAAACCACTAG
66 AACAGAGGATTTAGGGTTTCTCGAGAGGATTAGTTGGTATAGATTACGTGTTCTTAAACCACTAG
*
30211293 GCTTGACAACCATAGGAAGTTATCATAGGTTAGACGAGGTTGGGAGATAAGCCAAGCTGAGTAAA
131 GCTTGACAACCATAGGAAGTTATCATAGGTTAGACGAGGTTGGGAGATAAGCCAAACTGAGTAAA
30211358 TTGTAGTTTATTCTAGTTGAGAAAATAAGGTCAAGAGATAAGCGAGTATCAACCAATCGATTAAT
196 TTGTAGTTTATTCTAGTTGAGAAAATAAGGTCAAGAGATAAGCGAGTATCAACCAATCGATTAAT
30211423 TAGTTAGAGGTCGGGAGGTAATAATTAGTTAATCAATAGCTAATCCACCCTAAAACCCTAATCTA
261 TAGTTAGAGGTCGGGAGGTAATAATTAGTTAATCAATAGCTAATCCACCCTAAAACCCTAATCTA
*
30211488 AAGATAGTTACAAACCCTAAAGCGAGTTAATCTTCCTGATTGATTTATTGATTTAATTCATTTGT
326 AAGATAATTACAAACCCTAAAGCGAGTTAATCTTCCTGATTGATTTATTGATTTAATTCATTTGT
30211553 TTATTTTTCATATTTAATTATTTT
391 TTATTTTTCATATTTAATTATTTT
30211577 AGTTATTTAT
Statistics
Matches: 408, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
416 408 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (416 bp):
AGATTATGAATAACATGAATGGCTAATCCCTTATGGGAGATTAATGAGTGGATGGGGATGTGATT
AACAGAGGATTTAGGGTTTCTCGAGAGGATTAGTTGGTATAGATTACGTGTTCTTAAACCACTAG
GCTTGACAACCATAGGAAGTTATCATAGGTTAGACGAGGTTGGGAGATAAGCCAAACTGAGTAAA
TTGTAGTTTATTCTAGTTGAGAAAATAAGGTCAAGAGATAAGCGAGTATCAACCAATCGATTAAT
TAGTTAGAGGTCGGGAGGTAATAATTAGTTAATCAATAGCTAATCCACCCTAAAACCCTAATCTA
AAGATAATTACAAACCCTAAAGCGAGTTAATCTTCCTGATTGATTTATTGATTTAATTCATTTGT
TTATTTTTCATATTTAATTATTTTTC
Found at i:30221454 original size:21 final size:22
Alignment explanation
Indices: 30221411--30221461 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
30221401 GAGCCGTGCT
30221411 CATGTGAGATAGGCCACAAGAC
1 CATGTGAGATAGGCCACAAGAC
* * *
30221433 CATGTG-GATGGGTCACAGGAC
1 CATGTGAGATAGGCCACAAGAC
*
30221454 CGTGTGAG
1 CATGTGAG
30221462 CAAACCGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.27, C:0.20, G:0.35, T:0.18
Consensus pattern (22 bp):
CATGTGAGATAGGCCACAAGAC
Found at i:30222244 original size:14 final size:15
Alignment explanation
Indices: 30222225--30222254 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30222215 TGTATTTTTC
30222225 TTTTC-TTTTTCTTT
1 TTTTCTTTTTTCTTT
30222239 TTTTCTTTTTTCTTT
1 TTTTCTTTTTTCTTT
30222254 T
1 T
30222255 CGGTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTCTTTTTTCTTT
Found at i:30222393 original size:17 final size:17
Alignment explanation
Indices: 30222342--30222384 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
30222332 CAAAAAAAGG
30222342 TGTTCTTTTTTCTATTT
1 TGTTCTTTTTTCTATTT
30222359 TGTTCTTTTTTCTATTT
1 TGTTCTTTTTTCTATTT
30222376 TGTTCTTTT
1 TGTTCTTTT
30222385 CTTTTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.77
Consensus pattern (17 bp):
TGTTCTTTTTTCTATTT
Found at i:30222395 original size:14 final size:15
Alignment explanation
Indices: 30222349--30222413 Score: 69
Period size: 15 Copynumber: 4.3 Consensus size: 15
30222339 AGGTGTTCTT
*
30222349 TTTTCTATTTTGTTCTT
1 TTTTCTATTTT-TT-TC
*
30222366 TTTTCTATTTTGTTC
1 TTTTCTATTTTTTTC
30222381 TTTTCT-TTTTTTTC
1 TTTTCTATTTTTTTC
* *
30222395 TTCTCTATTTTTTTA
1 TTTTCTATTTTTTTC
30222410 TTTT
1 TTTT
30222414 TCATTTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.29
15 17 0.41
16 1 0.02
17 11 0.27
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.78
Consensus pattern (15 bp):
TTTTCTATTTTTTTC
Found at i:30222398 original size:17 final size:16
Alignment explanation
Indices: 30222344--30222396 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
30222334 AAAAAAGGTG
*
30222344 TTCTTTTTTCTATTTTG
1 TTCTTTTTTCT-TTTTT
*
30222361 TTCTTTTTTCTATTTTG
1 TTCTTTTTTCT-TTTTT
30222378 TTC--TTTTCTTTTTT
1 TTCTTTTTTCTTTTTT
30222392 TTCTT
1 TTCTT
30222397 CTCTATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
14 7 0.21
15 6 0.18
17 20 0.61
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.79
Consensus pattern (16 bp):
TTCTTTTTTCTTTTTT
Found at i:30223153 original size:26 final size:26
Alignment explanation
Indices: 30223119--30223203 Score: 90
Period size: 25 Copynumber: 3.3 Consensus size: 26
30223109 TTTGATTTCA
*
30223119 ATTTATTTTTGCAA-TTTTATTTAT-TT
1 ATTTATTTTT-AAACTTTT-TTTATATT
30223145 ATTTA-TTTTAAACTTTTTTTATATT
1 ATTTATTTTTAAACTTTTTTTATATT
*
30223170 ATTTA-TTTTAAA-TTGTTTTATTATT
1 ATTTATTTTTAAACTTTTTTTA-TATT
30223195 ATTTATTTT
1 ATTTATTTT
30223204 AAGTTTTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
24 14 0.26
25 31 0.58
26 8 0.15
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
ATTTATTTTTAAACTTTTTTTATATT
Found at i:30223161 original size:25 final size:24
Alignment explanation
Indices: 30223131--30223211 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 24
30223121 TTATTTTTGC
30223131 AATTTTATTTAT-TTATTTATTTTA
1 AATTTT-TTTATATTATTTATTTTA
30223155 AACTTTTTTTATATTATTTATTTTA
1 AA-TTTTTTTATATTATTTATTTTA
*
30223180 AATTGTTTTATTATTATTTATTTTA
1 AATTTTTTTA-TATTATTTATTTTA
*
30223205 AGTTTTT
1 AATTTTT
30223212 CACATATTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
24 14 0.27
25 37 0.73
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.69
Consensus pattern (24 bp):
AATTTTTTTATATTATTTATTTTA
Found at i:30223219 original size:25 final size:23
Alignment explanation
Indices: 30223143--30223221 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 23
30223133 TTTTATTTAT
*
30223143 TTATTTATTTTAAACTTTTTTTATA
1 TTATTTATTTTAAA--TTTTTAATA
*
30223168 TTATTTATTTTAAATTGTTTTATTA
1 TTATTTATTTTAAA-T-TTTTAATA
*
30223193 TTATTTATTTTAAGTTTTTCACATA
1 TTATTTATTTTAAATTTTT-A-ATA
30223218 TTAT
1 TTAT
30223222 GCATTTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.09
24 4 0.09
25 39 0.83
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (23 bp):
TTATTTATTTTAAATTTTTAATA
Found at i:30223394 original size:28 final size:25
Alignment explanation
Indices: 30223357--30223429 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 25
30223347 TTTTAAAAGA
*
30223357 AAACTGTTTTTTATATTATTCATTTG
1 AAACT-TTTTATATATTATTCATTTG
* *
30223383 AAATTTCTTTTTACATATTATTCATTTT
1 AAA---CTTTTTATATATTATTCATTTG
30223411 AAACTTTTTATATATTATT
1 AAACTTTTTATATATTATT
30223430 TTAAAATTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 15 0.38
26 3 0.08
28 20 0.50
29 2 0.05
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (25 bp):
AAACTTTTTATATATTATTCATTTG
Found at i:30226976 original size:10 final size:10
Alignment explanation
Indices: 30226961--30226994 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
30226951 CATTTTGACA
30226961 AATAAAAATC
1 AATAAAAATC
30226971 AATAAAAATC
1 AATAAAAATC
**
30226981 AATATCAATC
1 AATAAAAATC
30226991 AATA
1 AATA
30226995 TTTATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (10 bp):
AATAAAAATC
Found at i:30236003 original size:23 final size:22
Alignment explanation
Indices: 30235960--30236003 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
30235950 TTTCAAGTCA
30235960 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
30235983 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
30236004 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:30236174 original size:46 final size:46
Alignment explanation
Indices: 30236102--30236222 Score: 224
Period size: 46 Copynumber: 2.6 Consensus size: 46
30236092 ATAAGTGTCA
*
30236102 CACTAATATGTAGCCGAAGCTACCACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTACCACTGAAATGTAGCCAAAGCTAC
*
30236148 TACTGATATGTAGCCGAAGCTACCACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTACCACTGAAATGTAGCCAAAGCTAC
30236194 CACTGATATGTAGCCGAAGCTACCACTGA
1 CACTGATATGTAGCCGAAGCTACCACTGA
30236223 TCAATAACAC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (46 bp):
CACTGATATGTAGCCGAAGCTACCACTGAAATGTAGCCAAAGCTAC
Found at i:30236221 original size:23 final size:23
Alignment explanation
Indices: 30236102--30236223 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
30236092 ATAAGTGTCA
*
30236102 CACTAATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
30236125 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
30236148 TACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
30236171 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
30236194 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
30236217 CACTGAT
1 CACTGAT
30236224 CAATAACACT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 88 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:30238042 original size:56 final size:56
Alignment explanation
Indices: 30237956--30238075 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
30237946 ACAAGGGATG
30237956 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
30238012 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
30238068 ATGGGCAA
1 ATGGGCAA
30238076 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:30239441 original size:40 final size:40
Alignment explanation
Indices: 30239203--30239427 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
30239193 TCGAATGATG
* * * *
30239203 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
30239243 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30239283 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30239322 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30239362 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30239403 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30239428 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30239449 original size:119 final size:119
Alignment explanation
Indices: 30239203--30239460 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
30239193 TCGAATGATG
* *
30239203 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
30239268 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
30239322 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
30239385 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
30239442 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
30239461 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:30247276 original size:40 final size:40
Alignment explanation
Indices: 30247038--30247262 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
30247028 TCGAATGATG
* * * *
30247038 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
30247078 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30247118 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30247157 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30247197 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30247238 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30247263 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30247284 original size:119 final size:119
Alignment explanation
Indices: 30247038--30247295 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
30247028 TCGAATGATG
* *
30247038 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
30247103 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
30247157 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
30247220 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
30247277 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
30247296 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:30257818 original size:115 final size:117
Alignment explanation
Indices: 30257651--30257882 Score: 308
Period size: 115 Copynumber: 2.0 Consensus size: 117
30257641 GTTTTATAAG
* * *
30257651 TTTCTTAACATAAATTAGTAATGGTTTGTGGGTAGATGAGTGGTTAAACGACCATGGTA-ACAT-
1 TTTCTTAACATAAACTAGCAATGGTTTGTGGGTAGATGAGCGGTTAAACGACCATGG-AGACATG
* * *
30257714 AGAGACCCATGTTTGACTTCTTCTAGGAATAGTAAG-TTTAATTTTTTCCCTA
65 AGAGACCCAAGTTTGACTACTTCTAGGAATAGCAAGTTTTAATTTTTTCCCTA
* * * *
30257766 TTTCTTGACATAAACTAGCAATGGTTTGTGGGTAGATGAGCGGTTAAACGACCTTGGAGACTTGG
1 TTTCTTAACATAAACTAGCAATGGTTTGTGGGTAGATGAGCGGTTAAACGACCATGGAGACATGA
* * * *
30257831 GGGACCCAAGTTTGACTACTTTTAGGAATAGCAGGTTTTATTTTTTTCCCTA
66 GAGACCCAAGTTTGACTACTTCTAGGAATAGCAAGTTTTAATTTTTTCCCTA
30257883 CCAGATTTTG
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
114 1 0.01
115 55 0.55
116 29 0.29
117 15 0.15
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.36
Consensus pattern (117 bp):
TTTCTTAACATAAACTAGCAATGGTTTGTGGGTAGATGAGCGGTTAAACGACCATGGAGACATGA
GAGACCCAAGTTTGACTACTTCTAGGAATAGCAAGTTTTAATTTTTTCCCTA
Found at i:30261143 original size:47 final size:47
Alignment explanation
Indices: 30261092--30261506 Score: 688
Period size: 47 Copynumber: 8.7 Consensus size: 47
30261082 TTAGGATTCT
*
30261092 ATGTGATGGATGTGAACA-TGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
30261139 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
30261188 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
30261235 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
30261284 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
30261331 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
30261378 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
30261425 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
30261472 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
30261507 TCCCGAAGGC
Statistics
Matches: 350, Mismatches: 13, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 255 0.73
49 94 0.27
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:30261381 original size:94 final size:95
Alignment explanation
Indices: 30261092--30261506 Score: 692
Period size: 96 Copynumber: 4.4 Consensus size: 95
30261082 TTAGGATTCT
*
30261092 ATGTGATGGATGTGAACA-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
30261156 GTGTATATATATGTGATAAGGCCTAATGGCCG
65 GTG-ATATATATGTGATAAGGCCTAATGGCCG
30261188 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
30261253 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TG-ATATATATGTGATAAGGCCTAATGGCCG
*
30261284 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
30261349 TG-TATATATGTGATAAGGCCTAATGGCCG
66 TGATATATATGTGATAAGGCCTAATGGCCG
30261378 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * *
30261443 TG-TATATATGTGACAGGGCCGAGTGGCCA
66 TGATATATATGTGATAAGGCCTAATGGCCG
* * *
30261472 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
30261507 TCCCGAAGGC
Statistics
Matches: 307, Mismatches: 11, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
94 147 0.48
95 1 0.00
96 159 0.52
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (95 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGATATATATGTGATAAGGCCTAATGGCCG
Found at i:30261679 original size:36 final size:37
Alignment explanation
Indices: 30261624--30261701 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
30261614 CCGAGCTCTA
* * *
30261624 AAGACCCGATGACTACGTGTGGGGATT-TTTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
30261660 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30261697 AAGAC
1 AAGAC
30261702 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 24 0.65
37 13 0.35
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30264418 original size:16 final size:16
Alignment explanation
Indices: 30264393--30264423 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30264383 GTATGTTCAG
30264393 ATTGAAACCTAGATAA
1 ATTGAAACCTAGATAA
*
30264409 ATTGATACCTAGATA
1 ATTGAAACCTAGATA
30264424 CAAAAAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (16 bp):
ATTGAAACCTAGATAA
Found at i:30272690 original size:27 final size:27
Alignment explanation
Indices: 30272631--30272746 Score: 110
Period size: 27 Copynumber: 4.3 Consensus size: 27
30272621 CTGTCCCGAC
* * * *
30272631 GGACTATCCCATTTTTAATGTCTCGTC
1 GGACTATCTCATGTTTAATGTCTCATT
**
30272658 AAACTATCTCATGTTTAATGTCTCATT
1 GGACTATCTCATGTTTAATGTCTCATT
*
30272685 GGACTATC-CATGTTTAATGTC-CCTT
1 GGACTATCTCATGTTTAATGTCTCATT
* ** *
30272710 CAGACTATCTTGTGTTTAATGTCCCATT
1 -GGACTATCTCATGTTTAATGTCTCATT
30272738 GGACTATCT
1 GGACTATCT
30272747 TGTGTTTATT
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
25 3 0.04
26 20 0.28
27 46 0.64
28 3 0.04
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.41
Consensus pattern (27 bp):
GGACTATCTCATGTTTAATGTCTCATT
Found at i:30272718 original size:53 final size:53
Alignment explanation
Indices: 30272631--30272745 Score: 158
Period size: 53 Copynumber: 2.2 Consensus size: 53
30272621 CTGTCCCGAC
* * *
30272631 GGACTATCCCATTTTTAATGTCTCGTCAAACTATCTCATGTTTAATGTCTCATT
1 GGACTAT-CCATGTTTAATGTCCCGTCAAACTATCTCATGTTTAATGTCCCATT
* * **
30272685 GGACTATCCATGTTTAATGTCCCTTCAGACTATCTTGTGTTTAATGTCCCATT
1 GGACTATCCATGTTTAATGTCCCGTCAAACTATCTCATGTTTAATGTCCCATT
30272738 GGACTATC
1 GGACTATC
30272746 TTGTGTTTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 47 0.87
54 7 0.13
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.41
Consensus pattern (53 bp):
GGACTATCCATGTTTAATGTCCCGTCAAACTATCTCATGTTTAATGTCCCATT
Found at i:30272754 original size:27 final size:27
Alignment explanation
Indices: 30272660--30272746 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
30272650 GTCTCGTCAA
*
30272660 ACTATCTCATGTTTAATGTCTCATTGG
1 ACTATCTCATGTTTAATGTCCCATTGG
*
30272687 ACTATC-CATGTTTAATGTCCC-TTCAG
1 ACTATCTCATGTTTAATGTCCCATT-GG
**
30272713 ACTATCTTGTGTTTAATGTCCCATTGG
1 ACTATCTCATGTTTAATGTCCCATTGG
30272740 ACTATCT
1 ACTATCT
30272747 TGTGTTTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
25 2 0.04
26 21 0.40
27 27 0.52
28 2 0.04
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.43
Consensus pattern (27 bp):
ACTATCTCATGTTTAATGTCCCATTGG
Found at i:30277789 original size:42 final size:43
Alignment explanation
Indices: 30277719--30277799 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 43
30277709 TTATGTTTTG
* *
30277719 GAACCATATGGGTAGAGGACACGGGCATGTGTCCAGGCCGTGC
1 GAACCACATGGGTAGAGGACACGGGCATGTGTCAAGGCCGTGC
*
30277762 GAACCACATGGGTA-AGGACATGGGCATGTGTCAAGGCC
1 GAACCACATGGGTAGAGGACACGGGCATGTGTCAAGGCC
30277800 ATGTGGCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 22 0.63
43 13 0.37
ACGTcount: A:0.26, C:0.22, G:0.36, T:0.16
Consensus pattern (43 bp):
GAACCACATGGGTAGAGGACACGGGCATGTGTCAAGGCCGTGC
Found at i:30287120 original size:13 final size:13
Alignment explanation
Indices: 30287102--30287126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30287092 AAATTTAATA
30287102 TTATTTTGTGTGT
1 TTATTTTGTGTGT
30287115 TTATTTTGTGTG
1 TTATTTTGTGTG
30287127 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:30288344 original size:114 final size:113
Alignment explanation
Indices: 30288101--30288309 Score: 292
Period size: 114 Copynumber: 1.8 Consensus size: 113
30288091 TTAAATCAGC
* ** * *
30288101 ATATATATATGTATAAATATTGTACATTTGATGAGCTATAATTTAAAGTATACGAATTGAAAATA
1 ATATATATATATATATCTATTGTACATTTGATGAGCTATAACTAAAAGTATACGAATTGAAAATA
**
30288166 GTTAAGTATGAATGATATATATATGCATAAATGAAGTTCGAATATGTAT
66 GTTAAGTATGAATGATATATATACACATAAATGAAGTTCGAATA-GTAT
* * * *
30288215 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAACTAAAAGTATATGAATTGAAATTA
1 ATATATATATATATATCTATTGTACATTTGATGAGCTATAACTAAAAGTATACGAATTGAAAATA
30288280 GTTAAGTATGAATGTTATATATATACACAT
66 GTTAAGTATGAATG--ATATATATACACAT
30288310 GTGTGAGGTT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
114 72 0.86
116 12 0.14
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (113 bp):
ATATATATATATATATCTATTGTACATTTGATGAGCTATAACTAAAAGTATACGAATTGAAAATA
GTTAAGTATGAATGATATATATACACATAAATGAAGTTCGAATAGTAT
Found at i:30288701 original size:41 final size:41
Alignment explanation
Indices: 30288647--30288796 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
30288637 TTTCAGACTT
*
30288647 TAAGTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
**
30288688 TAAGCCTAGCAGGCTAAGTGTTGGTGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* * *
30288729 TAAACCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* *
30288770 TAAGCTTAGCA-GCGTAAATGCCGGTGA
1 TAAGCCTAGCAGGC-TAAGTGCCGGTGA
30288797 ATATGTTAAA
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 2 0.02
41 96 0.98
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (41 bp):
TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
Found at i:30294491 original size:13 final size:13
Alignment explanation
Indices: 30294473--30294497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30294463 TAATTTAATA
30294473 TTATTTTGTGTGT
1 TTATTTTGTGTGT
30294486 TTATTTTGTGTG
1 TTATTTTGTGTG
30294498 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:30295595 original size:12 final size:12
Alignment explanation
Indices: 30295578--30295610 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30295568 TGAAGTTCGA
30295578 ATATGTATATAT
1 ATATGTATATAT
*
30295590 ATATGTATATCT
1 ATATGTATATAT
30295602 AT-TGTATAT
1 ATATGTATAT
30295611 TTGATGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:30295669 original size:112 final size:112
Alignment explanation
Indices: 30295472--30295675 Score: 363
Period size: 112 Copynumber: 1.8 Consensus size: 112
30295462 TTAAATCAGC
30295472 ATATATATATGTATAACTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAAATA
1 ATATATATATGTATAACTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAAATA
30295537 GTTAAGTATGAATGATATATATATGCATAAATGAAGTTCGAATATGT
66 GTTAAGTATGAATGATATATATATGCATAAATGAAGTTCGAATATGT
* * * *
30295584 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTA
1 ATATATATATGTATAACTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAAATA
*
30295649 GTTAAGTATGAATGTTATATATATGCA
66 GTTAAGTATGAATGATATATATATGCA
30295676 CATGTGTGAG
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 87 1.00
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.39
Consensus pattern (112 bp):
ATATATATATGTATAACTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAAATA
GTTAAGTATGAATGATATATATATGCATAAATGAAGTTCGAATATGT
Found at i:30296075 original size:41 final size:41
Alignment explanation
Indices: 30296016--30296165 Score: 228
Period size: 41 Copynumber: 3.7 Consensus size: 41
30296006 TTTCGGACTT
* *
30296016 TAAGTCTAGAAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
*
30296057 TAAGCCTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* * *
30296098 TAAACCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* *
30296139 TAAGCTTAGCAGGCTAAATGCCGGTGA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGA
30296166 ATATGTTAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (41 bp):
TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
Found at i:30301465 original size:28 final size:28
Alignment explanation
Indices: 30301383--30301465 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 28
30301373 TGGTATCCAT
* * * *
30301383 CACTGGTACATGGTACCTAGAAATATAT
1 CACTGATACATAGTACCTGGAAATATAA
* * * * *
30301411 CACT-AGACAGAATGCTTGGAAACTATAA
1 CACTGATACATAGTACCTGGAAA-TATAA
30301439 CACTGATACATAGTACCTGGAAATATA
1 CACTGATACATAGTACCTGGAAATATA
30301466 TCATTGGCAC
Statistics
Matches: 39, Mismatches: 14, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
27 10 0.26
28 16 0.41
29 13 0.33
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (28 bp):
CACTGATACATAGTACCTGGAAATATAA
Found at i:30309710 original size:43 final size:41
Alignment explanation
Indices: 30309644--30309772 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 41
30309634 CATAGGATTC
*
30309644 CGATATGTGTTTTCGTGTAAGACCTCGTCTAGGATATTGGCAT
1 CGATATGTGTTTACGTGTAAGACC-CGTCTAGGA-ATTGGCAT
* *
30309687 CGACT-TGTGTTTACGTGTAAGACCCTGTCTAGGACAGTGGAAT
1 CGA-TATGTGTTTACGTGTAAGACCC-GTCTAGGA-ATTGGCAT
* * *
30309730 CGATATGTGATTACATGTAAGACCACGTCTGGGAAGTTGGCAT
1 CGATATGTGTTTACGTGTAAGACC-CGTCTAGGAA-TTGGCAT
30309773 TGTACGAGCC
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
42 3 0.04
43 67 0.93
44 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (41 bp):
CGATATGTGTTTACGTGTAAGACCCGTCTAGGAATTGGCAT
Found at i:30313074 original size:25 final size:23
Alignment explanation
Indices: 30313046--30313100 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
30313036 CCATTAATTA
* *
30313046 GGAAGCTTCAGATAGCCATATGTCG
1 GGAAGCTTAAGAGAGCCATA--TCG
* *
30313071 GGAAGTTTAAGCGAGCCATATCG
1 GGAAGCTTAAGAGAGCCATATCG
30313094 GGAAGCT
1 GGAAGCT
30313101 CACAAAGAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 9 0.36
25 16 0.64
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (23 bp):
GGAAGCTTAAGAGAGCCATATCG
Found at i:30317021 original size:40 final size:39
Alignment explanation
Indices: 30316956--30317145 Score: 182
Period size: 40 Copynumber: 4.8 Consensus size: 39
30316946 AAGTTACTAG
* ** * * *
30316956 AGTATAAATAGGGGCACAAAAGTGCATTCAATGGTACCGA
1 AGTAAAAATAGGGGCACGTAGGTGCAATC-AGGGTACCGA
** * * *
30316996 AGTGCAAACAGGGGCACGTAGGTGCAATCGGGAGTACTGA
1 AGTAAAAATAGGGGCACGTAGGTGCAATCAGG-GTACCGA
* * *
30317036 AGTAAAAATAGGGGCATGTATGTGCAATCAGGGATACTGA
1 AGTAAAAATAGGGGCACGTAGGTGCAATCAGGG-TACCGA
30317076 AGTAAAAATAGGGGCACGTAGGTGCAATCAGGGGTACCGA
1 AGTAAAAATAGGGGCACGTAGGTGCAATCA-GGGTACCGA
* * **
30317116 AGTACAAATAGGGGCATGTATATGCAATCA
1 AGTAAAAATAGGGGCACGTAGGTGCAATCA
30317146 TACAAAAAAT
Statistics
Matches: 124, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 2 0.02
40 119 0.96
41 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.19
Consensus pattern (39 bp):
AGTAAAAATAGGGGCACGTAGGTGCAATCAGGGTACCGA
Found at i:30317974 original size:8 final size:9
Alignment explanation
Indices: 30317952--30317976 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
30317942 ATTTAACATT
30317952 ATTTTTATC
1 ATTTTTATC
30317961 ATTTTTATC
1 ATTTTTATC
30317970 ATTTTTA
1 ATTTTTA
30317977 ATGTCGTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTTATC
Found at i:30327443 original size:23 final size:23
Alignment explanation
Indices: 30327413--30327477 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
30327403 GGAGGAAGTG
30327413 CTACTGGCGGTTTATCCACATAT
1 CTACTGGCGGTTTATCCACATAT
* * **
30327436 CTACTGGCAGTTCATCTGCATAT
1 CTACTGGCGGTTTATCCACATAT
* * *
30327459 CTACTAGTGGTATATCCAC
1 CTACTGGCGGTTTATCCAC
30327478 GTGAGCTTAT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (23 bp):
CTACTGGCGGTTTATCCACATAT
Found at i:30328094 original size:9 final size:9
Alignment explanation
Indices: 30328077--30328146 Score: 95
Period size: 9 Copynumber: 7.8 Consensus size: 9
30328067 TGGTTAAAAA
*
30328077 TAACTGAAT
1 TAACCGAAT
30328086 TAACCGAAT
1 TAACCGAAT
*
30328095 TACCCGAAT
1 TAACCGAAT
30328104 TAACCGAAT
1 TAACCGAAT
*
30328113 TACCCGAAT
1 TAACCGAAT
*
30328122 TACCCGAAT
1 TAACCGAAT
*
30328131 TACCCGAAT
1 TAACCGAAT
30328140 TAACCGA
1 TAACCGA
30328147 CTTGAATCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (9 bp):
TAACCGAAT
Found at i:30328105 original size:18 final size:18
Alignment explanation
Indices: 30328082--30328146 Score: 121
Period size: 18 Copynumber: 3.6 Consensus size: 18
30328072 AAAAATAACT
30328082 GAATTAACCGAATTACCC
1 GAATTAACCGAATTACCC
30328100 GAATTAACCGAATTACCC
1 GAATTAACCGAATTACCC
*
30328118 GAATTACCCGAATTACCC
1 GAATTAACCGAATTACCC
30328136 GAATTAACCGA
1 GAATTAACCGA
30328147 CTTGAATCAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.22
Consensus pattern (18 bp):
GAATTAACCGAATTACCC
Found at i:30328119 original size:27 final size:27
Alignment explanation
Indices: 30328082--30328146 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
30328072 AAAAATAACT
30328082 GAATTAACCGAATTACCCGAATTAACC
1 GAATTAACCGAATTACCCGAATTAACC
* *
30328109 GAATTACCCGAATTACCCGAATTACCC
1 GAATTAACCGAATTACCCGAATTAACC
30328136 GAATTAACCGA
1 GAATTAACCGA
30328147 CTTGAATCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.22
Consensus pattern (27 bp):
GAATTAACCGAATTACCCGAATTAACC
Found at i:30328268 original size:18 final size:18
Alignment explanation
Indices: 30328225--30328268 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
30328215 AATTTTTATG
*
30328225 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGATA
*
30328243 ATTTGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
30328261 CTTGGGTT
1 ATTGGGTT
30328269 TGGATTGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.11, C:0.02, G:0.43, T:0.43
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:30329317 original size:11 final size:11
Alignment explanation
Indices: 30329301--30329328 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
30329291 TTTAAAATTT
30329301 TATATTTATTA
1 TATATTTATTA
30329312 TATATTTATTA
1 TATATTTATTA
30329323 TATATT
1 TATATT
30329329 CAGGCCGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTATTA
Found at i:30333089 original size:17 final size:17
Alignment explanation
Indices: 30333069--30333101 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30333059 TTGAGTCAGG
30333069 ATTGAATTTTAAATTTC
1 ATTGAATTTTAAATTTC
30333086 ATTGAATTTTAAATTT
1 ATTGAATTTTAAATTT
30333102 TGAAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTGAATTTTAAATTTC
Found at i:30336563 original size:342 final size:342
Alignment explanation
Indices: 30335930--30336615 Score: 1070
Period size: 342 Copynumber: 2.0 Consensus size: 342
30335920 TGGAAGCTAA
*
30335930 TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGAAAAAGGTGGCTGGAGAAGCACACACT
1 TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGAAAAAGGTGGCTGGAAAAGCACACACT
* * *
30335995 ACCACTCAGACAATGCAGATCAGGCAGTTGGACATCATTTCATCAGATTTAATAATATACGATCC
66 ACCACTCACACAATGCAGATCAGACAGTTGGACATCATTTCAGCAGATTTAATAATATACGATCC
* * *
30336060 CAAGTGAGTCAACAAAATGAAAATATTGTTGTGAAAAGAGATAATGCTAGTGGAGGAAACAATAG
131 CAAGTGAGTCAACAAAATGAAAATATAGTTGTGAAAAGAGATAATGCTAGTGGAGAAAACAACAG
* ** *
30336125 GACCACATGTGATGGTCCAGAAAGTCATGATGCAACTGAAAAAGCTGGTGTGATTGTCTCAAAAT
196 GACCACATGTGATGGTCCAGAAAATCATGATGCAACTGAAAAAGCTCCTATGATTGTCTCAAAAT
*
30336190 TCAACCAAAGAAGTGAACCTTCTAGTGCAAAAAACATACTGCCTAAAAGGCAAACAAAACATGTA
261 TCAACCAAAGAAGTGAACCTTCTAGTGCAAAAAACATACTGCCTAAAAGGCAAACAAAACATGCA
*
30336255 TTGAACTCAAGAAATAG
326 TTAAACTCAAGAAATAG
* *
30336272 TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGGAAAAGGTGGCTGGAAAAGCACACATT
1 TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGAAAAAGGTGGCTGGAAAAGCACACACT
** * * * *
30336337 ACTGCTCACAGAATGCAGATCAGACAGTTGGACATCATTTTAGCAGATTTAATAATGTACGATGC
66 ACCACTCACACAATGCAGATCAGACAGTTGGACATCATTTCAGCAGATTTAATAATATACGATCC
* *
30336402 GAAGTGAGTCAACAAAATGAAAATATAGTTGTGAAAAGAGATAATGCTAGTGGAGAAAAGAACAG
131 CAAGTGAGTCAACAAAATGAAAATATAGTTGTGAAAAGAGATAATGCTAGTGGAGAAAACAACAG
***
30336467 GACTGTATGTGATGGTCCAGAAAATCATGATGCAACT-AAAACAGCTCCTATGATTGTCTCAAAA
196 GACCACATGTGATGGTCCAGAAAATCATGATGCAACTGAAAA-AGCTCCTATGATTGTCTCAAAA
* * * *
30336531 TTCAACCACATAAGTGAACCTTCTCA-TGCAAAAAACATGCTGCCTAAAAGGCAAACACAACATG
260 TTCAACCAAAGAAGTGAACCTTCT-AGTGCAAAAAACATACTGCCTAAAAGGCAAACAAAACATG
30336595 CATTAAACTCAAGAAATAG
324 CATTAAACTCAAGAAATAG
30336614 TG
1 TG
30336616 ATGAAAGTGC
Statistics
Matches: 312, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
341 4 0.01
342 307 0.98
343 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (342 bp):
TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGAAAAAGGTGGCTGGAAAAGCACACACT
ACCACTCACACAATGCAGATCAGACAGTTGGACATCATTTCAGCAGATTTAATAATATACGATCC
CAAGTGAGTCAACAAAATGAAAATATAGTTGTGAAAAGAGATAATGCTAGTGGAGAAAACAACAG
GACCACATGTGATGGTCCAGAAAATCATGATGCAACTGAAAAAGCTCCTATGATTGTCTCAAAAT
TCAACCAAAGAAGTGAACCTTCTAGTGCAAAAAACATACTGCCTAAAAGGCAAACAAAACATGCA
TTAAACTCAAGAAATAG
Found at i:30338044 original size:122 final size:122
Alignment explanation
Indices: 30337827--30338070 Score: 488
Period size: 122 Copynumber: 2.0 Consensus size: 122
30337817 CATAATATTA
30337827 ATAAATAGTATATTTCATTTAAGCTATTCAACTTGAGTGAAAAGACCTTTTTTGTAGGATTGTAT
1 ATAAATAGTATATTTCATTTAAGCTATTCAACTTGAGTGAAAAGACCTTTTTTGTAGGATTGTAT
30337892 ATTTGTATTTATCAGACAATAGAATCATGAAATATGCTAATATTCAGTCAAGTTTTC
66 ATTTGTATTTATCAGACAATAGAATCATGAAATATGCTAATATTCAGTCAAGTTTTC
30337949 ATAAATAGTATATTTCATTTAAGCTATTCAACTTGAGTGAAAAGACCTTTTTTGTAGGATTGTAT
1 ATAAATAGTATATTTCATTTAAGCTATTCAACTTGAGTGAAAAGACCTTTTTTGTAGGATTGTAT
30338014 ATTTGTATTTATCAGACAATAGAATCATGAAATATGCTAATATTCAGTCAAGTTTTC
66 ATTTGTATTTATCAGACAATAGAATCATGAAATATGCTAATATTCAGTCAAGTTTTC
30338071 TCTTTTTTGT
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (122 bp):
ATAAATAGTATATTTCATTTAAGCTATTCAACTTGAGTGAAAAGACCTTTTTTGTAGGATTGTAT
ATTTGTATTTATCAGACAATAGAATCATGAAATATGCTAATATTCAGTCAAGTTTTC
Found at i:30341580 original size:113 final size:113
Alignment explanation
Indices: 30341402--30341629 Score: 447
Period size: 113 Copynumber: 2.0 Consensus size: 113
30341392 AAATAAACCC
30341402 TTAATTTTAATTTATGTACTTTTTTACCCATGATTTTATTTGTTACAAGGATTTAATCTAAATCT
1 TTAATTTTAATTTATGTACTTTTTTACCCATGATTTTATTTGTTACAAGGATTTAATCTAAATCT
*
30341467 CTTACTAAACACCAAAAACTATGGATTATAACTCTTTTAATGTACTAA
66 CTTACTAAACACCAAAAACTATGGATTATAACTCTTTTAATGTAATAA
30341515 TTAATTTTAATTTATGTACTTTTTTACCCATGATTTTATTTGTTACAAGGATTTAATCTAAATCT
1 TTAATTTTAATTTATGTACTTTTTTACCCATGATTTTATTTGTTACAAGGATTTAATCTAAATCT
30341580 CTTACTAAACACCAAAAACTATGGATTATAACTCTTTTAATGTAATAA
66 CTTACTAAACACCAAAAACTATGGATTATAACTCTTTTAATGTAATAA
30341628 TT
1 TT
30341630 TTATTCTAAG
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 114 1.00
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.45
Consensus pattern (113 bp):
TTAATTTTAATTTATGTACTTTTTTACCCATGATTTTATTTGTTACAAGGATTTAATCTAAATCT
CTTACTAAACACCAAAAACTATGGATTATAACTCTTTTAATGTAATAA
Found at i:30343018 original size:16 final size:17
Alignment explanation
Indices: 30342997--30343030 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
30342987 ATCACTTGTA
30342997 ACAACT-TTCTAATATT
1 ACAACTCTTCTAATATT
*
30343013 ACAACTCTTCTATTATT
1 ACAACTCTTCTAATATT
30343030 A
1 A
30343031 TTTTTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (17 bp):
ACAACTCTTCTAATATT
Found at i:30346201 original size:69 final size:69
Alignment explanation
Indices: 30346026--30346201 Score: 212
Period size: 69 Copynumber: 2.6 Consensus size: 69
30346016 GCCTCGGTGG
* * * * * ** *
30346026 ACTCTAATGGTTGGCATAGCCGAGCTATAG-ACTTACACCTTATAATCCCTGTGTTTACTGTCCT
1 ACTCTATTAGTTGCCATAGCCGAGCTATGGTA-TTACATCTTATAATCCCCATGTTTACTATCCT
30346090 GACAA
65 GACAA
**
30346095 ACTCTATTAGTTGCCATAGTTGAGCTATGGTATTACATCTTATAATCCCCATGTTTACTAT-CTC
1 ACTCTATTAGTTGCCATAGCCGAGCTATGGTATTACATCTTATAATCCCCATGTTTACTATCCT-
30346159 GACAA
65 GACAA
* *
30346164 ACTCTATTAGTTTCCATAGCCGAGCTATGGTGTTACAT
1 ACTCTATTAGTTGCCATAGCCGAGCTATGGTATTACAT
30346202 TATATACATC
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
68 2 0.02
69 88 0.97
70 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (69 bp):
ACTCTATTAGTTGCCATAGCCGAGCTATGGTATTACATCTTATAATCCCCATGTTTACTATCCTG
ACAA
Found at i:30354890 original size:27 final size:27
Alignment explanation
Indices: 30354851--30354926 Score: 134
Period size: 27 Copynumber: 2.8 Consensus size: 27
30354841 TATTGTTAGC
* *
30354851 CCCAAATCCCAGAGGGTCGTGGGTAGT
1 CCCAATTCTCAGAGGGTCGTGGGTAGT
30354878 CCCAATTCTCAGAGGGTCGTGGGTAGT
1 CCCAATTCTCAGAGGGTCGTGGGTAGT
30354905 CCCAATTCTCAGAGGGTCGTGG
1 CCCAATTCTCAGAGGGTCGTGG
30354927 ACTACTCTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.22
Consensus pattern (27 bp):
CCCAATTCTCAGAGGGTCGTGGGTAGT
Found at i:30355867 original size:15 final size:15
Alignment explanation
Indices: 30355847--30355878 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
30355837 TATGATGACT
30355847 TAATTTTGTTAATGC
1 TAATTTTGTTAATGC
30355862 TAATTTTGTTAATGC
1 TAATTTTGTTAATGC
30355877 TA
1 TA
30355879 GATTAATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (15 bp):
TAATTTTGTTAATGC
Found at i:30362443 original size:7 final size:6
Alignment explanation
Indices: 30362412--30362443 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
30362402 TGATTTTCTC
30362412 AAAATG AAAATG AAAATG AAAATG AGAAATG A
1 AAAATG AAAATG AAAATG AAAATG A-AAATG A
30362444 TTCATTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.19, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:30362632 original size:25 final size:25
Alignment explanation
Indices: 30362603--30362661 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
30362593 TTTCACCCGA
*
30362603 GGTAAAATTACCATAATTTTATTGG
1 GGTAAAATTACCATAATTTTACTGG
30362628 GGTAAAATTACCATAATTTTACTGG
1 GGTAAAATTACCATAATTTTACTGG
30362653 GGTAAAATT
1 GGTAAAATT
30362662 GAGATGAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (25 bp):
GGTAAAATTACCATAATTTTACTGG
Found at i:30363587 original size:24 final size:24
Alignment explanation
Indices: 30363552--30363597 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
30363542 GATTTGCGTC
*
30363552 AAAGCTCGTTTTTCTTCCATCGAA
1 AAAGCTCATTTTTCTTCCATCGAA
30363576 AAAGCTCATTTTTCTTCCATCG
1 AAAGCTCATTTTTCTTCCATCG
30363598 GAGGTAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (24 bp):
AAAGCTCATTTTTCTTCCATCGAA
Found at i:30364843 original size:10 final size:10
Alignment explanation
Indices: 30364825--30364870 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
30364815 CTATAACTAA
30364825 ATGTGATTAT
1 ATGTGATTAT
*
30364835 ATGTAATTAT
1 ATGTGATTAT
*
30364845 ATGTGCTTAT
1 ATGTGATTAT
30364855 ATGTGATTGAT
1 ATGTGATT-AT
30364866 ATGTG
1 ATGTG
30364871 TCAGAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 24 0.77
11 7 0.23
ACGTcount: A:0.28, C:0.02, G:0.22, T:0.48
Consensus pattern (10 bp):
ATGTGATTAT
Found at i:30371968 original size:18 final size:18
Alignment explanation
Indices: 30371937--30371989 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
30371927 GCAATATATG
30371937 TAAAAATA-ATTTAAAATA
1 TAAAAATATA-TTAAAATA
* *
30371955 TAAAAATTTATTAATATA
1 TAAAAATATATTAAAATA
*
30371973 TAACAATATATGTAAAA
1 TAAAAATATAT-TAAAA
30371990 ACAATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TAAAAATATATTAAAATA
Found at i:30372226 original size:20 final size:20
Alignment explanation
Indices: 30372201--30372239 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
30372191 GCAATTACAC
30372201 AATTC-ACATATACAATATTT
1 AATTCAACATATA-AATATTT
30372221 AATTCAAACATATAAATAT
1 AATTC-AACATATAAATAT
30372240 GCATAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTCAACATATAAATATTT
Found at i:30372399 original size:5 final size:5
Alignment explanation
Indices: 30372370--30372408 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
30372360 TAAATTTAAC
* *
30372370 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
30372409 CATCTTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:30382911 original size:26 final size:26
Alignment explanation
Indices: 30382855--30382913 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
30382845 TATTTTCTCG
* *
30382855 AAATTTTACCAAGGGAAAAATCTTTA
1 AAATTTTACCAAGGGAAAAATCGTCA
*
30382881 AAATTTTACCAAGGGCAAAATCGTCA
1 AAATTTTACCAAGGGAAAAATCGTCA
*
30382907 CAATTTT
1 AAATTTT
30382914 CCTGGAGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTTTACCAAGGGAAAAATCGTCA
Found at i:30389336 original size:26 final size:26
Alignment explanation
Indices: 30389300--30389368 Score: 111
Period size: 26 Copynumber: 2.7 Consensus size: 26
30389290 TTTTCAATAG
*
30389300 TGCTCACACGAGCTGTGAAATGAGTC
1 TGCTCACACGAGTTGTGAAATGAGTC
* *
30389326 TGCTCACACGATTTGTGAAATGGGTC
1 TGCTCACACGAGTTGTGAAATGAGTC
30389352 TGCTCACACGAGTTGTG
1 TGCTCACACGAGTTGTG
30389369 GGTCGAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (26 bp):
TGCTCACACGAGTTGTGAAATGAGTC
Found at i:30397540 original size:20 final size:18
Alignment explanation
Indices: 30397517--30397557 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
30397507 GAGTTGAGAA
*
30397517 AATTATTTAATTGAAAATTT
1 AATTAATTAATT--AAATTT
30397537 AATTAATTAATTAAATTT
1 AATTAATTAATTAAATTT
30397555 AAT
1 AAT
30397558 AAATAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AATTAATTAATTAAATTT
Found at i:30402214 original size:22 final size:23
Alignment explanation
Indices: 30402171--30402225 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
30402161 TCGGCCCGTT
*
30402171 TTTTAAATAAATACCAAAAATTTA
1 TTTTAAA-AAATACAAAAAATTTA
30402195 TTTTAAAAAATA-AAAAAATTTA
1 TTTTAAAAAATACAAAAAATTTA
30402217 TTTTAAAAA
1 TTTTAAAAA
30402226 TATTTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 18 0.60
23 5 0.17
24 7 0.23
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
TTTTAAAAAATACAAAAAATTTA
Found at i:30402241 original size:17 final size:17
Alignment explanation
Indices: 30402242--30402279 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
30402232 AAAATTAAAA
*
30402242 AAAATTAAAAAAAATTT
1 AAAATTAAAAAAATTTT
30402259 AAAATTAAAAAAATTTT
1 AAAATTAAAAAAATTTT
30402276 AAAA
1 AAAA
30402280 AAGTATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATTAAAAAAATTTT
Found at i:30402245 original size:10 final size:10
Alignment explanation
Indices: 30402232--30402262 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
30402222 AAAATATTTT
30402232 AAAATTAAAA
1 AAAATTAAAA
30402242 AAAATTAAAA
1 AAAATTAAAA
30402252 AAAATTTAAAA
1 AAAA-TTAAAA
30402263 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.70
11 6 0.30
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:30402250 original size:27 final size:28
Alignment explanation
Indices: 30402219--30402303 Score: 118
Period size: 27 Copynumber: 3.0 Consensus size: 28
30402209 AAAATTTATT
30402219 TTAAAAATATTTTAAAATTAAAAAAA-A
1 TTAAAAATATTTTAAAATTAAAAAAATA
* * *
30402246 TTAAAAAAAATTTAAAATTAAAAAAATT
1 TTAAAAATATTTTAAAATTAAAAAAATA
30402274 TTAAAAAAGTATTTTAAAATTAAAAAAATA
1 TT-AAAAA-TATTTTAAAATTAAAAAAATA
30402304 AAAAAAAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
27 24 0.49
28 2 0.04
29 5 0.10
30 18 0.37
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (28 bp):
TTAAAAATATTTTAAAATTAAAAAAATA
Found at i:30402305 original size:27 final size:27
Alignment explanation
Indices: 30402221--30402309 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 27
30402211 AATTTATTTT
30402221 AAAAATATTTTAAAATTAAAAAAAATTA
1 AAAAATATTTTAAAATT-AAAAAAATTA
*
30402249 AAAAA-AATTTAAAATTAAAAAAATTTTA
1 AAAAATATTTTAAAATTAAAAAAA--TTA
*
30402277 AAAAAGTATTTTAAAATTAAAAAAATAA
1 AAAAA-TATTTTAAAATTAAAAAAATTA
30402305 AAAAA
1 AAAAA
30402310 AATATTTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
26 7 0.13
27 10 0.19
28 20 0.37
30 17 0.31
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (27 bp):
AAAAATATTTTAAAATTAAAAAAATTA
Found at i:30405297 original size:17 final size:15
Alignment explanation
Indices: 30405269--30405316 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
30405259 GTCATTCCTG
30405269 TATAATATTTTTATC
1 TATAATATTTTTATC
30405284 TATATATATCTTTTAT-
1 TATA-ATAT-TTTTATC
*
30405300 TAAAATTATTTTTATC
1 TATAA-TATTTTTATC
30405316 T
1 T
30405317 CACATACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 11 0.39
16 11 0.39
17 6 0.21
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (15 bp):
TATAATATTTTTATC
Found at i:30407193 original size:12 final size:12
Alignment explanation
Indices: 30407174--30407204 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
30407164 ATAAATAATG
30407174 AATTTTATTTTT
1 AATTTTATTTTT
*
30407186 ATTTTTATTTTT
1 AATTTTATTTTT
30407198 AATTTTA
1 AATTTTA
30407205 ATTTCAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
AATTTTATTTTT
Found at i:30411186 original size:25 final size:25
Alignment explanation
Indices: 30411157--30411222 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
30411147 ATGGCCCAGC
* *
30411157 ACACGGCCTGGCACATGAGCGTGTG
1 ACACGGCCTGGCACACGAGCGAGTG
* *
30411182 ACACGACCTGGCACACGGGCGAGTG
1 ACACGGCCTGGCACACGAGCGAGTG
*
30411207 ACACGGCCTGACACAC
1 ACACGGCCTGGCACAC
30411223 AGGAATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.24, C:0.33, G:0.32, T:0.11
Consensus pattern (25 bp):
ACACGGCCTGGCACACGAGCGAGTG
Found at i:30429681 original size:453 final size:453
Alignment explanation
Indices: 30428835--30429731 Score: 1555
Period size: 453 Copynumber: 2.0 Consensus size: 453
30428825 TGAGTTTTTG
*
30428835 CTCCTTTCCTTTTACGAGGATTTTTATCTTTAGAACCAACCGGTCTTCCACGTTTCAAGCATGGA
1 CTCCTTTCCTTTTACGAGGATTTTTATCTTTAGAACCAACCGGTCTTCCACGTTTCAAGCATGAA
*
30428900 TTACTTTCTTTTGCACTAATAGTTCGCCCTATTGGGATATCAATTCGTATTGGAGCATTTTCAGC
66 TTACCTTCTTTTGCACTAATAGTTCGCCCTATTGGGATATCAATTCGTATTGGAGCATTTTCAGC
* * * *
30428965 TGGTATGTGAGATTTTGTAATTCTCTTTAGGTCATTAAATGAATCTGGCAGTTGATTGGCGATGT
131 TAGTATGTGAGATTTTGTAATTCTCTTTAGGTCATTAAATGAATCTGGCAATTGATTGACGATAT
*
30429030 TTTGCAAATGTACGATCCTTTGAACTTCTTGTTCACATTGACTTGTGTGAGGATCTAATTGAGAT
196 TTTGCAAATGTACGATCCTTTGAACTTCTTGTTCACATTGACTTGTATGAGGATCTAATTGAGAT
* * * *
30429095 AATGATGATCCATTTCATGTAATTTCTTTTACTAGTTGTATTTTCTCTCCCCTTAATGTTGGGAA
261 AATGATGATCCATTTCATGTAAATTATTTTACTAGTTGTATTTTCTCTCCCCCTAATGCTGGGAA
30429160 TATTGTTTCACTAAAGTAGCAATCAACAAACCAAGCAGTAAATAAATCTTCAGTTAATGGTTCAA
326 TATTGTTTCACTAAAGTAGCAATCAACAAACCAAGCAGTAAATAAATCTTCAGTTAATGGTTCAA
30429225 CATACTTAATTACAGAAGGAGATTCATAACCAACATATATTCCCAACCTCCTCTAAGTATTTA
391 CATACTTAATTACAGAAGGAGATTCATAACCAACATATATTCCCAACCTCCTCTAAGTATTTA
* * *
30429288 CTCCTTTCCTTTTATGTGGATTTTTATCTTTAGAACCAACCGGTCTTCCACGTTTCAGGCATGAA
1 CTCCTTTCCTTTTACGAGGATTTTTATCTTTAGAACCAACCGGTCTTCCACGTTTCAAGCATGAA
* *
30429353 TTACCTTCTTTTGCATTAATAGTTCGCCCTATTGGGATATCAATTCGTATTGTAGCATTTTCAGC
66 TTACCTTCTTTTGCACTAATAGTTCGCCCTATTGGGATATCAATTCGTATTGGAGCATTTTCAGC
30429418 TAGTATGTGAGATTTTGTAATTCTCTTTAGGTCATTAAATGAATCTGGCAATTGATTGACGATAT
131 TAGTATGTGAGATTTTGTAATTCTCTTTAGGTCATTAAATGAATCTGGCAATTGATTGACGATAT
* *
30429483 TTTGCAAATGTACGATCTTTTGAACTTCTTGTTCACGTTGACTTGTATGAGGATCTAATTGAGAT
196 TTTGCAAATGTACGATCCTTTGAACTTCTTGTTCACATTGACTTGTATGAGGATCTAATTGAGAT
*
30429548 AATGATGATTCATTTCATGTAAATTATTTTACTAGTTGTATTTTCTCTCCCCCTAATGCTGGGAA
261 AATGATGATCCATTTCATGTAAATTATTTTACTAGTTGTATTTTCTCTCCCCCTAATGCTGGGAA
* * *
30429613 TATTGTTTCATTAAAGT-GACAATCAACAAATCATA-CAGTAAATTAATCTTCAGTTAATGGTTC
326 TATTGTTTCACTAAAGTAG-CAATCAACAAACCA-AGCAGTAAATAAATCTTCAGTTAATGGTTC
*
30429676 AACATACTTAATTATAGAAGGAGATTCATAACCAACATATATTCCCAACCTCCTCT
389 AACATACTTAATTACAGAAGGAGATTCATAACCAACATATATTCCCAACCTCCTCT
30429732 GAGGACCCAT
Statistics
Matches: 419, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
452 1 0.00
453 417 1.00
454 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (453 bp):
CTCCTTTCCTTTTACGAGGATTTTTATCTTTAGAACCAACCGGTCTTCCACGTTTCAAGCATGAA
TTACCTTCTTTTGCACTAATAGTTCGCCCTATTGGGATATCAATTCGTATTGGAGCATTTTCAGC
TAGTATGTGAGATTTTGTAATTCTCTTTAGGTCATTAAATGAATCTGGCAATTGATTGACGATAT
TTTGCAAATGTACGATCCTTTGAACTTCTTGTTCACATTGACTTGTATGAGGATCTAATTGAGAT
AATGATGATCCATTTCATGTAAATTATTTTACTAGTTGTATTTTCTCTCCCCCTAATGCTGGGAA
TATTGTTTCACTAAAGTAGCAATCAACAAACCAAGCAGTAAATAAATCTTCAGTTAATGGTTCAA
CATACTTAATTACAGAAGGAGATTCATAACCAACATATATTCCCAACCTCCTCTAAGTATTTA
Found at i:30432242 original size:11 final size:11
Alignment explanation
Indices: 30432228--30432262 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
30432218 AAAAAACTAA
*
30432228 AAAATATTAGT
1 AAAATAATAGT
30432239 AAAATAATAGT
1 AAAATAATAGT
30432250 AAAATAATAGT
1 AAAATAATAGT
30432261 AA
1 AA
30432263 TCATATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (11 bp):
AAAATAATAGT
Found at i:30433791 original size:27 final size:27
Alignment explanation
Indices: 30433761--30433812 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
30433751 ACCAATCATA
* *
30433761 CCTCCTTGACAGGCGGCACTGGTGACC
1 CCTCCTTGAAAGGCGGCACTAGTGACC
30433788 CCTCCTTGAAAGGCGGCACTAGTGA
1 CCTCCTTGAAAGGCGGCACTAGTGA
30433813 GTAGATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.33, G:0.29, T:0.19
Consensus pattern (27 bp):
CCTCCTTGAAAGGCGGCACTAGTGACC
Found at i:30433885 original size:25 final size:26
Alignment explanation
Indices: 30433853--30433907 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 26
30433843 CCCCTTGTAG
30433853 AGAAGAAGAAGA-GAAA-CGGTAA-A-
1 AGAA-AAGAAGAGGAAACCGGTAATAT
30433876 AGAAAAGAAGAGGAAACCGGTAATAT
1 AGAAAAGAAGAGGAAACCGGTAATAT
30433902 AGAAAA
1 AGAAAA
30433908 AAAAAGGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.25
23 8 0.29
24 6 0.21
25 1 0.04
26 6 0.21
ACGTcount: A:0.60, C:0.05, G:0.27, T:0.07
Consensus pattern (26 bp):
AGAAAAGAAGAGGAAACCGGTAATAT
Found at i:30433934 original size:29 final size:25
Alignment explanation
Indices: 30433905--30433971 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 25
30433895 GTAATATAGA
30433905 AAAAAAAAGGGAGAAGAAAGAAAGAAAG
1 AAAAAAAA--GAGAAGAAA-AAAGAAAG
*
30433933 AAAGAAAAGAGAAGAAAAAAG--AG
1 AAAAAAAAGAGAAGAAAAAAGAAAG
*
30433956 AAAAGAAAGAAGAAGA
1 AAAAAAAAG-AGAAGA
30433972 GAAATCTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 9 0.26
24 6 0.17
25 4 0.11
26 9 0.26
28 7 0.20
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (25 bp):
AAAAAAAAGAGAAGAAAAAAGAAAG
Found at i:30433935 original size:12 final size:12
Alignment explanation
Indices: 30433918--30433975 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
30433908 AAAAAGGGAG
30433918 AAGAAAGAAAGA
1 AAGAAAGAAAGA
30433930 AAGAAAGAAAAGA
1 AAGAAAG-AAAGA
30433943 GAAGAAA-AAAGA
1 -AAGAAAGAAAGA
*
30433955 GA-AAAGAAAG-
1 AAGAAAGAAAGA
30433965 AAGAAGAGAAA
1 AAGAA-AGAAA
30433976 TCTGTTTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 4 0.10
11 7 0.18
12 17 0.44
13 5 0.13
14 6 0.15
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AAGAAAGAAAGA
Found at i:30433941 original size:17 final size:18
Alignment explanation
Indices: 30433921--30433975 Score: 78
Period size: 17 Copynumber: 3.1 Consensus size: 18
30433911 AAGGGAGAAG
30433921 AAAGAAAGAAAGAA-AGA
1 AAAGAAAGAAAGAAGAGA
*
30433938 AAAGAGAAGAAAAAAGAGA
1 AAAGA-AAGAAAGAAGAGA
30433957 AAAGAAAG-AAGAAGAGA
1 AAAGAAAGAAAGAAGAGA
30433974 AA
1 AA
30433976 TCTGTTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 15 0.44
18 11 0.32
19 8 0.24
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAAGAAGAGA
Found at i:30440563 original size:107 final size:111
Alignment explanation
Indices: 30440371--30440574 Score: 281
Period size: 107 Copynumber: 1.8 Consensus size: 111
30440361 ATTACATTCA
* *
30440371 TAACAAATCACAATAAATATTAAACTAAACAAATAATTAACCTAATAAAAAATTACTAACAAAAT
1 TAACAAATCACAATAAACATTAAACTAAACAAACAATT-A--TAATAAAAAATTACTAACAAAAT
* *
30440436 AACTTTAAAATCAATTAAAAA-AACAAAAAAAAAATTACATTCATAACC
63 AACTTTAAAATAAAGTAAAAACAACAAAAAAAAAATTACATTCATAACC
* * *
30440484 TAACAAATCACAATAAGCATTAAACTAAACAAACAATT-T-AT-AATAGTTACTAACAAAATAAC
1 TAACAAATCACAATAAACATTAAACTAAACAAACAATTATAATAAAAAATTACTAACAAAATAAC
*
30440546 TTTAAAATAAAGTAAAAACAACATAAAAA
66 TTTAAAATAAAGTAAAAACAACAAAAAAA
30440575 TCATAATAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
107 35 0.43
108 11 0.13
109 1 0.01
113 35 0.43
ACGTcount: A:0.61, C:0.14, G:0.01, T:0.24
Consensus pattern (111 bp):
TAACAAATCACAATAAACATTAAACTAAACAAACAATTATAATAAAAAATTACTAACAAAATAAC
TTTAAAATAAAGTAAAAACAACAAAAAAAAAATTACATTCATAACC
Found at i:30440657 original size:6 final size:6
Alignment explanation
Indices: 30440646--30440672 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
30440636 CCTTCTATTT
30440646 AAACAA AAACAA AAACAA AAACAA AAA
1 AAACAA AAACAA AAACAA AAACAA AAA
30440673 TACCTTATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAA
Found at i:30441103 original size:22 final size:21
Alignment explanation
Indices: 30441073--30441113 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
30441063 AAAATATGGA
*
30441073 TTTTTTTAGAATAAAAATATT
1 TTTTTTTAGAAAAAAAATATT
30441094 TTTTTATTAGAAAAAAAATA
1 TTTTT-TTAGAAAAAAAATA
30441114 GGGTGGTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
TTTTTTTAGAAAAAAAATATT
Found at i:30441209 original size:13 final size:14
Alignment explanation
Indices: 30441186--30441219 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
30441176 GCATACCTAT
*
30441186 TATTTTTTATTTTA
1 TATTATTTATTTTA
30441200 -ATTATTTATTTTA
1 TATTATTTATTTTA
30441213 TATTATT
1 TATTATT
30441220 GGTGTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTATTTATTTTA
Found at i:30442896 original size:10 final size:10
Alignment explanation
Indices: 30442877--30442986 Score: 61
Period size: 10 Copynumber: 10.8 Consensus size: 10
30442867 ATTATTAACA
30442877 ATTATAAAAAT
1 ATTAT-AAAAT
30442888 ATTATAAAAT
1 ATTATAAAAT
30442898 -TTATAAAA-
1 ATTATAAAAT
*
30442906 ATTTATAAAAA
1 A-TTATAAAAT
*
30442917 ATTGTAATAA-
1 ATTATAA-AAT
30442927 ATTATTAAAA-
1 ATTA-TAAAAT
30442937 ATTTATAAAAT
1 A-TTATAAAAT
*
30442948 -TAATAAATCAT
1 ATTATAAA--AT
30442959 ATT-TAAAAT
1 ATTATAAAAT
* *
30442968 TTTATAAAAC
1 ATTATAAAAT
30442978 ACTTATAAA
1 A-TTATAAA
30442987 TAATAGAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
9 18 0.22
10 34 0.43
11 27 0.34
12 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:30442903 original size:20 final size:19
Alignment explanation
Indices: 30442861--30442946 Score: 84
Period size: 20 Copynumber: 4.4 Consensus size: 19
30442851 TCATACAAAG
* *
30442861 TATAAAATTATTAACAA-T
1 TATAAAAATATTAAAAATT
30442879 TATAAAAATATTATAAAATT
1 TATAAAAATATTA-AAAATT
* *
30442899 TATAAAAATTTATAAAAAAT
1 TATAAAAATAT-TAAAAATT
*
30442919 TGTAATAAATTATTAAAAATT
1 TATAA-AAA-TATTAAAAATT
30442940 TATAAAA
1 TATAAAA
30442947 TTAATAAATC
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
18 12 0.22
19 3 0.05
20 22 0.40
21 16 0.29
22 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (19 bp):
TATAAAAATATTAAAAATT
Found at i:30442929 original size:31 final size:30
Alignment explanation
Indices: 30442861--30442946 Score: 106
Period size: 31 Copynumber: 2.9 Consensus size: 30
30442851 TCATACAAAG
*
30442861 TATAAAATTATTAACAA-TTATAAAAATAT
1 TATAAAATTATTAAAAATTTATAAAAATAT
30442890 TATAAAATT-TATAAAAATTTATAAAAA-AT
1 TATAAAATTAT-TAAAAATTTATAAAAATAT
*
30442919 TGTAATAAATTATTAAAAATTTATAAAA
1 TAT-A-AAATTATTAAAAATTTATAAAA
30442947 TTAATAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
28 1 0.02
29 18 0.36
30 10 0.20
31 20 0.40
32 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (30 bp):
TATAAAATTATTAAAAATTTATAAAAATAT
Found at i:30443955 original size:18 final size:19
Alignment explanation
Indices: 30443932--30443976 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
30443922 ATTTTATTAA
*
30443932 AATTTTTAT-ATTTTTATG
1 AATTTTTATAATTCTTATG
30443950 AATTTTTATAATTCTTATG
1 AATTTTTATAATTCTTATG
*
30443969 AAATTTTA
1 AATTTTTA
30443977 AATATATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
AATTTTTATAATTCTTATG
Found at i:30443962 original size:9 final size:9
Alignment explanation
Indices: 30443866--30444130 Score: 132
Period size: 9 Copynumber: 28.0 Consensus size: 9
30443856 TAAATTACTT
30443866 TTTTTATAA
1 TTTTTATAA
30443875 --TTTATAA
1 TTTTTATAA
*
30443882 TTTTTCAATAG
1 TTTTT--ATAA
30443893 TTTTTATAAA
1 TTTTTAT-AA
*
30443903 TTTTTTATAT
1 -TTTTTATAA
*
30443913 TTTATTACAA
1 TTT-TTATAA
*
30443923 TTTTATTAAAA
1 -TTT-TTATAA
30443934 TTTTTAT-A
1 TTTTTATAA
30443942 TTTTTATGAA
1 TTTTTAT-AA
30443952 TTTTTATAA
1 TTTTTATAA
*
30443961 TTCTTATGAA
1 TTTTTAT-AA
*
30443971 ATTTTA-AA
1 TTTTTATAA
* * *
30443979 TATATCAAATA
1 T-TTTTATA-A
30443990 TGTTTTATTAA
1 T-TTTTA-TAA
30444001 -TTTTAT-A
1 TTTTTATAA
30444008 TTTTTATAA
1 TTTTTATAA
* *
30444017 TTTATAATGATT
1 TTT-TTAT-A-A
30444029 TTTTTATAA
1 TTTTTATAA
30444038 TTTTTATAA
1 TTTTTATAA
*
30444047 TTTTTATGACTTT
1 TTTTTAT-A---A
30444060 TTTTTATAA
1 TTTTTATAA
30444069 -TTTTATAA
1 TTTTTATAA
*
30444077 TTTTTAAAAA
1 TTTTT-ATAA
*
30444087 ATTTTA-AA
1 TTTTTATAA
*
30444095 TTTTTAAAA
1 TTTTTATAA
*
30444104 TTTTTAAAA
1 TTTTTATAA
*
30444113 TTTTTAAAA
1 TTTTTATAA
30444122 TTTTTATAA
1 TTTTTATAA
30444131 ATTCTTTTAT
Statistics
Matches: 202, Mismatches: 27, Indels: 54
0.71 0.10 0.19
Matches are distributed among these distances:
7 8 0.04
8 32 0.16
9 80 0.40
10 36 0.18
11 34 0.17
12 5 0.02
13 7 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:30444043 original size:30 final size:30
Alignment explanation
Indices: 30444001--30444080 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 30
30443991 GTTTTATTAA
30444001 TTTTAT-ATTTTTATAATTTATAATGA-TTT
1 TTTTATAATTTTTATAATTT-TAATGACTTT
*
30444030 TTTTATAATTTTTATAATTTTTATGACTTTT
1 TTTTATAATTTTTATAATTTTAATGAC-TTT
30444061 TTTTATAA-TTTTATAATTTT
1 TTTTATAATTTTTATAATTTT
30444081 TAAAAAATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
29 11 0.23
30 25 0.53
31 11 0.23
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.68
Consensus pattern (30 bp):
TTTTATAATTTTTATAATTTTAATGACTTT
Found at i:30444367 original size:5 final size:5
Alignment explanation
Indices: 30444357--30444404 Score: 60
Period size: 5 Copynumber: 9.6 Consensus size: 5
30444347 TTCATAAGGT
* * * *
30444357 ATATG ATATG ATATG ATATG ATATG ATATA ACATT ATATA ATATG ATA
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATA
30444405 GAAATGCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:30444684 original size:6 final size:6
Alignment explanation
Indices: 30444673--30444708 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
30444663 TATGGCTTGA
30444673 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
30444709 AAGGTGGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
TGTATG
Found at i:30446843 original size:18 final size:19
Alignment explanation
Indices: 30446790--30446844 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 19
30446780 TATGCTTTTG
30446790 GAGTTTAAGTCTTGTTTGATA
1 GAGTTTAAGTC-T-TTTGATA
* *
30446811 GACTTTTAA-TGTTTTGATA
1 GA-GTTTAAGTCTTTTGATA
30446830 -AGTTTAAGTCTTTTG
1 GAGTTTAAGTCTTTTG
30446845 GCCACTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
17 5 0.18
18 7 0.25
19 7 0.25
20 1 0.04
21 3 0.11
22 5 0.18
ACGTcount: A:0.24, C:0.05, G:0.20, T:0.51
Consensus pattern (19 bp):
GAGTTTAAGTCTTTTGATA
Found at i:30453396 original size:96 final size:96
Alignment explanation
Indices: 30453273--30453502 Score: 311
Period size: 96 Copynumber: 2.4 Consensus size: 96
30453263 TGTTTATTAT
* *
30453273 TTTTTAA-TAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTATAAATTATT
1 TTTTTAAGTAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATT-TT
* *
30453337 TA-AAAATCAGATAAGGGTTTAGAGTTAATGG
65 TATAAAATCAGATAAGGGGTTAGAGTTAAGGG
* *
30453368 TTTTTAAGGAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTT
1 TTTTTAAGTAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTT
** * * *
30453433 ATAAAATTTGATTAGGGGTTAGTGTTTAGGG
66 ATAAAATCAGATAAGGGGTTAGAGTTAAGGG
* *
30453464 TTTTTAAGTAAAAACTCAAATAAATTAAGGTTTGGGGTT
1 TTTTTAAGTAAAAA-TCAAATAAATTAGGGTTTAGGGTT
30453503 CAGGGTTACT
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
95 11 0.09
96 85 0.73
97 21 0.18
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (96 bp):
TTTTTAAGTAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTT
ATAAAATCAGATAAGGGGTTAGAGTTAAGGG
Found at i:30453760 original size:126 final size:126
Alignment explanation
Indices: 30453535--30454077 Score: 775
Period size: 126 Copynumber: 4.3 Consensus size: 126
30453525 TTGTTAATTT
* * * *
30453535 AAAGAAGCTCCCACGTGGACGCGCTTTTGCGACAATAGCTCCTAAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
** * *
30453600 GTTTCTGAGCAAATAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAGTAGTATTG
66 GTTTCTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * *
30453661 AAAGAAGCTCCCACGTGGATGCACTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAT
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
*
30453726 GTTTCTGAGCAAATAGTGTCAAAAACATTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * * * *
30453787 AAAGAAGCTCTCACGTGGACACGCTTTTGCTACAGTAGCTCCTGAATAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
* * * * * * *
30453852 ATTTCTAAGCATATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTTAGTAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * * *
30453913 AAAGAAGCTCCCAGGTGGACGCGCTTTTGCTACAGTGGCTTCTGAAAAAATAATTTTGAATAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
30453978 GTTTCTGAGCAAATAGCGT--AAAACATGCTTTAAGCAGAATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACA--CTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
*
30454039 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTGGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGC
30454078 GCATGTTTGG
Statistics
Matches: 369, Mismatches: 46, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
124 5 0.01
126 364 0.99
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:30459517 original size:11 final size:11
Alignment explanation
Indices: 30459503--30459531 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
30459493 TTTAAATAGA
30459503 AATTTGAGAGG
1 AATTTGAGAGG
30459514 AATTTGAGAGG
1 AATTTGAGAGG
30459525 AATTTGA
1 AATTTGA
30459532 AAGAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (11 bp):
AATTTGAGAGG
Done.