Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 239 of 322
Found at i:79600701 original size:43 final size:41
Alignment explanation
Indices: 79600654--79600739 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 41
79600644 CTAGGGTAAA
* *
79600654 TTCAACAACCCATGTTTATCTTCTCCTTTTTTTAAATTCTTTT
1 TTCAACAACCCAAGATTATCTTCTCCTTTTTTT-AATT-TTTT
*
79600697 TTCAACAACCCAAGATTATCTTCTTCTTTTTTTAATTTTTT
1 TTCAACAACCCAAGATTATCTTCTCCTTTTTTTAATTTTTT
79600738 TT
1 TT
79600740 GGAATAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 6 0.15
42 4 0.10
43 30 0.75
ACGTcount: A:0.22, C:0.21, G:0.02, T:0.55
Consensus pattern (41 bp):
TTCAACAACCCAAGATTATCTTCTCCTTTTTTTAATTTTTT
Found at i:79606107 original size:18 final size:18
Alignment explanation
Indices: 79606077--79606131 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
79606067 TTTTGGTTAC
*
79606077 TTAT-TTTTGGGTTTTAA
1 TTATATTTTAGGTTTTAA
79606094 TTATATTTTAGGTTTTAA
1 TTATATTTTAGGTTTTAA
79606112 TTATATTTTA-GTTTCTAA
1 TTATATTTTAGGTTT-TAA
79606130 TT
1 TT
79606132 TGAACATCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
17 8 0.23
18 27 0.77
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.64
Consensus pattern (18 bp):
TTATATTTTAGGTTTTAA
Found at i:79619900 original size:30 final size:30
Alignment explanation
Indices: 79619864--79619924 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
79619854 CATTTAATAC
*
79619864 AAACTTTTGCAAAATTACATTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
*
79619894 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
79619924 A
1 A
79619925 GGCTCGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:79628074 original size:26 final size:26
Alignment explanation
Indices: 79628038--79628090 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
79628028 GTTGTTCGTA
79628038 AAGAAAAAAGATGGTTCGATAAGGTT
1 AAGAAAAAAGATGGTTCGATAAGGTT
79628064 AAGAAAAAAGATGGTTCGATAAGGTT
1 AAGAAAAAAGATGGTTCGATAAGGTT
79628090 A
1 A
79628091 TGTATCGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.26, T:0.23
Consensus pattern (26 bp):
AAGAAAAAAGATGGTTCGATAAGGTT
Found at i:79634939 original size:65 final size:65
Alignment explanation
Indices: 79634825--79634974 Score: 165
Period size: 65 Copynumber: 2.3 Consensus size: 65
79634815 GCCATATCAA
* * * * * * *
79634825 GACACTCACAAAGTGCTTCTTTTGTGTCTACAACATATGCAAGATCACAATCTATCATAAAACAG
1 GACACTCACAAAGAGCTGCGTTTGTGTCCACAACATATGCAAGACCACAACCGATCATAAAACAG
* * * * *
79634890 GACACTCACAAAGAGCTGCGTTTGTGTCCGCAATATATGTAGGACCACAACCGATCATATAACAG
1 GACACTCACAAAGAGCTGCGTTTGTGTCCACAACATATGCAAGACCACAACCGATCATAAAACAG
** *
79634955 GACGTTCACAAAGAGTTGCG
1 GACACTCACAAAGAGCTGCG
79634975 GTAGTCTACA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (65 bp):
GACACTCACAAAGAGCTGCGTTTGTGTCCACAACATATGCAAGACCACAACCGATCATAAAACAG
Found at i:79637633 original size:25 final size:26
Alignment explanation
Indices: 79637605--79637664 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 26
79637595 GTAAAATTTT
79637605 CTATAC-AAATCCTTCGGTACACAGA
1 CTATACTAAATCCTTCGGTACACAGA
*
79637630 CTATACCTCTGAATCCTTCGGTACACAGA
1 CTATA---CTAAATCCTTCGGTACACAGA
79637659 CTATAC
1 CTATAC
79637665 CTCTGAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 5 0.17
26 1 0.03
28 1 0.03
29 23 0.77
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.27
Consensus pattern (26 bp):
CTATACTAAATCCTTCGGTACACAGA
Found at i:79637645 original size:29 final size:29
Alignment explanation
Indices: 79637612--79637672 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
79637602 TTTCTATACA
79637612 AATCCTTCGGTACACAGACTATACCTCTG
1 AATCCTTCGGTACACAGACTATACCTCTG
79637641 AATCCTTCGGTACACAGACTATACCTCTG
1 AATCCTTCGGTACACAGACTATACCTCTG
79637670 AAT
1 AAT
79637673 AACAGACAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
AATCCTTCGGTACACAGACTATACCTCTG
Found at i:79640479 original size:13 final size:13
Alignment explanation
Indices: 79640461--79640485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79640451 TAATGGTATA
79640461 TTGAATCCATGAT
1 TTGAATCCATGAT
79640474 TTGAATCCATGA
1 TTGAATCCATGA
79640486 AAATTTAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:79642452 original size:47 final size:47
Alignment explanation
Indices: 79642396--79643412 Score: 1890
Period size: 47 Copynumber: 21.6 Consensus size: 47
79642386 GTATATTTGA
*
79642396 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
79642443 ACGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
79642490 ACGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79642537 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79642584 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79642631 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79642678 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79642725 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79642772 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79642819 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79642866 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79642913 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79642960 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79643007 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79643054 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79643101 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
79643148 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
79643195 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
79643242 ACGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * *
79643289 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * *
79643336 ATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
79643383 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
79643413 TCCCGAAGGG
Statistics
Matches: 953, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 953 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:79649742 original size:22 final size:22
Alignment explanation
Indices: 79649717--79649759 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
79649707 GGCTATGCGA
79649717 TCTGAGCTCATGAGTTATGTGG
1 TCTGAGCTCATGAGTTATGTGG
79649739 TCTGAGCTCATGAGTTATGTG
1 TCTGAGCTCATGAGTTATGTG
79649760 ACACATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (22 bp):
TCTGAGCTCATGAGTTATGTGG
Found at i:79651198 original size:37 final size:37
Alignment explanation
Indices: 79651148--79651226 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
79651138 TTATTACGAA
* *
79651148 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
79651185 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
79651222 GTCTT
1 GTCTT
79651227 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:79651423 original size:47 final size:47
Alignment explanation
Indices: 79651345--79651761 Score: 591
Period size: 47 Copynumber: 8.6 Consensus size: 47
79651335 CCCTTCGGGA
* * * * * *
79651345 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
79651392 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
79651439 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79651486 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
79651537 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79651584 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
79651635 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79651682 CTTATCACATATATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
79651735 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
79651762 TATTCAAATA
Statistics
Matches: 336, Mismatches: 20, Indels: 28
0.88 0.05 0.07
Matches are distributed among these distances:
47 194 0.58
49 6 0.02
51 97 0.29
53 39 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:79651542 original size:98 final size:98
Alignment explanation
Indices: 79651345--79651761 Score: 698
Period size: 98 Copynumber: 4.3 Consensus size: 98
79651335 CCCTTCGGGA
* * * * * * * *
79651345 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC----ATATAT
1 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
79651406 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
79651439 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
79651504 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
79651537 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
79651602 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
79651635 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
79651700 ACACACTTTCACATTCATCACATCGGCCATTAGGC
66 --ACACTTTCACATTCATCACATCGGCCATTAGGC
*
79651735 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTCTCACATT
79651762 TATTCAAATA
Statistics
Matches: 306, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
94 47 0.15
98 200 0.65
100 59 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (98 bp):
CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:79651647 original size:145 final size:145
Alignment explanation
Indices: 79651345--79651749 Score: 584
Period size: 145 Copynumber: 2.8 Consensus size: 145
79651335 CCCTTCGGGA
* * * * * * *
79651345 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACAC
79651410 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATATACACTCTCACATTCATCA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTCTCACATTCATCA
*
79651471 CGTCGGCCATTAGGC
131 CATCGGCCATTAGGC
*
79651486 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC----ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATAT
* *
79651551 ACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTC
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTCTCACATTC
79651616 ATCACATCGGCCATTAGGC
127 ATCACATCGGCCATTAGGC
*
79651635 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC----ATATAT
79651700 ACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
62 --ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
79651750 CACTTTCACA
Statistics
Matches: 236, Mismatches: 14, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
141 8 0.03
145 130 0.55
149 51 0.22
151 47 0.20
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTCTCACATTCATCA
CATCGGCCATTAGGC
Found at i:79657706 original size:46 final size:46
Alignment explanation
Indices: 79657565--79657780 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 46
79657555 GTAAGGTGCT
* * * * * *
79657565 GATGCCATGTCCCAGACATGGTCTTACATTGACTATCACCTCGTAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCATAGCC
* * *
79657613 GATGCATGTCCCAAACATGTCTTACACTGGCT-TACGTCTCGA-GGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTC-ATAGCC
79657659 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCA-ATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCATA-GCC
* * * ** * *
79657705 GATCTCATGT-CCAGGACATGGTCTTGCACTGGCTCTCATATTGTGGTC
1 GAT-GCATGTCCCA-GACAT-GTCTTACACTGGCTCTCATCTCATAGCC
*
79657753 GATGCATGTCCTAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
79657781 AGCCAACAAT
Statistics
Matches: 138, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.01
46 72 0.52
47 34 0.25
48 30 0.22
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCATAGCC
Found at i:79662363 original size:23 final size:22
Alignment explanation
Indices: 79662324--79662371 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
79662314 TACTCTACAA
79662324 AAATATATAAAGAATTTATTCTC
1 AAATATATAAAGAATTT-TTCTC
* *
79662347 AAATAT-TAAATATATTTTTTTC
1 AAATATATAAAGA-ATTTTTCTC
79662369 AAA
1 AAA
79662372 ATAATAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATATATAAAGAATTTTTCTC
Found at i:79664272 original size:16 final size:16
Alignment explanation
Indices: 79664251--79664284 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
79664241 TAATTAATAC
79664251 GTGATGAATGACTTAA
1 GTGATGAATGACTTAA
*
79664267 GTGATGAATGGCTTAA
1 GTGATGAATGACTTAA
79664283 GT
1 GT
79664285 AATAATTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (16 bp):
GTGATGAATGACTTAA
Found at i:79665389 original size:36 final size:37
Alignment explanation
Indices: 79665335--79665452 Score: 145
Period size: 36 Copynumber: 3.3 Consensus size: 37
79665325 CTCTCTGTTT
* *
79665335 TGGTGTGTTTCGGTTGGATTAGCTCTTTA-GAGCCA-C
1 TGGTGTGTTTCAGATGGATTAGCTCTTTATGAG-CATC
*
79665371 TGGTGTGTTTCAGATGGATTAGCTC-TTATGAGCATT
1 TGGTGTGTTTCAGATGGATTAGCTCTTTATGAGCATC
* *
79665407 TGGTGTGTTTCAGACGGACTAGCT-TTTATGAGCATC
1 TGGTGTGTTTCAGATGGATTAGCTCTTTATGAGCATC
*
79665443 TAGTGTGTTT
1 TGGTGTGTTT
79665453 TGGTGGGATT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
35 5 0.07
36 67 0.93
ACGTcount: A:0.17, C:0.14, G:0.29, T:0.41
Consensus pattern (37 bp):
TGGTGTGTTTCAGATGGATTAGCTCTTTATGAGCATC
Found at i:79666132 original size:101 final size:101
Alignment explanation
Indices: 79665957--79666259 Score: 606
Period size: 101 Copynumber: 3.0 Consensus size: 101
79665947 TTGTGTGAAA
79665957 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
1 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
79666022 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
66 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
79666058 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
1 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
79666123 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
66 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
79666159 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
1 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
79666224 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
66 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
79666260 CTATAGAACT
Statistics
Matches: 202, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 202 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.33
Consensus pattern (101 bp):
ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
Found at i:79667202 original size:19 final size:17
Alignment explanation
Indices: 79667175--79667221 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
79667165 AAAAAGCTCG
*
79667175 ATAAGTGATAATGCCTAAA
1 ATAAATGATAATG-C-AAA
*
79667194 ATAAATGATAATGCACA
1 ATAAATGATAATGCAAA
79667211 ATAAATGATAA
1 ATAAATGATAA
79667222 ATGTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 13 0.50
18 1 0.04
19 12 0.46
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.26
Consensus pattern (17 bp):
ATAAATGATAATGCAAA
Found at i:79677606 original size:14 final size:14
Alignment explanation
Indices: 79677587--79677618 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
79677577 TCTGTATGTA
*
79677587 TGTGGGTGTGTGTG
1 TGTGGGTGTGTATG
79677601 TGTGGGTGTGTATG
1 TGTGGGTGTGTATG
79677615 TGTG
1 TGTG
79677619 TATGTGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.03, C:0.00, G:0.53, T:0.44
Consensus pattern (14 bp):
TGTGGGTGTGTATG
Found at i:79682056 original size:36 final size:36
Alignment explanation
Indices: 79682009--79682081 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
79681999 TCAAGAGAAA
79682009 GAACAGATGATGTACCATAACAAATAATATTCCAAT
1 GAACAGATGATGTACCATAACAAATAATATTCCAAT
79682045 GAACAGATGATGTACCATAACAAATAATATTCCAAT
1 GAACAGATGATGTACCATAACAAATAATATTCCAAT
79682081 G
1 G
79682082 GCATAGGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (36 bp):
GAACAGATGATGTACCATAACAAATAATATTCCAAT
Found at i:79682605 original size:15 final size:15
Alignment explanation
Indices: 79682585--79682613 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
79682575 TTCTTTCATT
79682585 TCTGGTCAATAAACC
1 TCTGGTCAATAAACC
79682600 TCTGGTCAATAAAC
1 TCTGGTCAATAAAC
79682614 TGCGATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (15 bp):
TCTGGTCAATAAACC
Found at i:79685059 original size:42 final size:42
Alignment explanation
Indices: 79685020--79685135 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 42
79685010 TCACATATTG
* *
79685020 TGCCAATAGCCCAGCTATGGTCTTACACGATGTCTCATATCAA
1 TGCC-ATAGCCCAGATATGGTCTTACACGAAGTCTCATATCAA
* * *
79685063 TGCCATATCCCAGATATGGTCTTATACGAAGTCTCATTTTCAA
1 TGCCATAGCCCAGATATGGTCTTACACGAAGTCTCA-TATCAA
* * **
79685106 AGCCAT-GTCCAAGACGTGGTCTTACACGAA
1 TGCCATAG-CCCAGATATGGTCTTACACGAA
79685136 ATCCCATGCT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
TGCCATAGCCCAGATATGGTCTTACACGAAGTCTCATATCAA
Found at i:79685127 original size:43 final size:42
Alignment explanation
Indices: 79685036--79685135 Score: 119
Period size: 43 Copynumber: 2.4 Consensus size: 42
79685026 TAGCCCAGCT
* * * *
79685036 ATGGTCTTACACGATGTCTCATATCAATGCCATATCCCAGAT
1 ATGGTCTTACACGAAGTCTCATATCAAAGCCATATCCAAGAC
* * *
79685078 ATGGTCTTATACGAAGTCTCATTTTCAAAGCCATGTCCAAGAC
1 ATGGTCTTACACGAAGTCTCA-TATCAAAGCCATATCCAAGAC
*
79685121 GTGGTCTTACACGAA
1 ATGGTCTTACACGAA
79685136 ATCCCATGCT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 19 0.40
43 29 0.60
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACACGAAGTCTCATATCAAAGCCATATCCAAGAC
Found at i:79689027 original size:29 final size:29
Alignment explanation
Indices: 79688926--79689016 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
79688916 TACCTGTGTC
* * * * *
79688926 TGGCCCACTAAGCCC-AATCATATTCATG
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
79688954 TGGCCCATTAGGCCCAAATCA-ACTGTATA
1 TGGCCCATTAGGCCCAAATCACA-TTTATA
79688983 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
79689012 TGGCC
1 TGGCC
79689017 TGTTGGGCCC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 14 0.26
29 39 0.72
30 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:79689264 original size:8 final size:8
Alignment explanation
Indices: 79689251--79689301 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
79689241 GTAGCCAAAC
79689251 TTTCGGCT
1 TTTCGGCT
79689259 TTTCGG-T
1 TTTCGGCT
*
79689266 ATTTTGGCT
1 -TTTCGGCT
* *
79689275 TTTTGGCA
1 TTTCGGCT
*
79689283 TTTCGGCA
1 TTTCGGCT
79689291 TTTCGGCT
1 TTTCGGCT
79689299 TTT
1 TTT
79689302 GCCAATTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
7 1 0.03
8 35 0.95
9 1 0.03
ACGTcount: A:0.06, C:0.18, G:0.24, T:0.53
Consensus pattern (8 bp):
TTTCGGCT
Found at i:79689276 original size:16 final size:16
Alignment explanation
Indices: 79689251--79689297 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
79689241 GTAGCCAAAC
*
79689251 TTTCGGCTTTTCGGTA
1 TTTCGGCTTTTCGGCA
* *
79689267 TTTTGGCTTTTTGGCA
1 TTTCGGCTTTTCGGCA
*
79689283 TTTCGGCATTTCGGC
1 TTTCGGCTTTTCGGC
79689298 TTTTGCCAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.06, C:0.19, G:0.26, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:79696475 original size:29 final size:27
Alignment explanation
Indices: 79696457--79696526 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
79696447 ATATTAAGTC
79696457 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
79696484 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
79696512 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
79696527 GTACAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:79696520 original size:28 final size:28
Alignment explanation
Indices: 79696457--79696554 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
79696447 ATATTAAGTC
*
79696457 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
79696484 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
79696512 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
79696541 CGCACACTTAGTGC
1 CGCACACTTAGTGC
79696555 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.35
29 19 0.31
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:79702681 original size:41 final size:41
Alignment explanation
Indices: 79702561--79702750 Score: 222
Period size: 40 Copynumber: 4.7 Consensus size: 41
79702551 TCGGGGTTTA
*
79702561 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
* * * * * * *
79702602 AAT-CGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
*
79702642 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
* * * * * * *
79702683 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
79702723 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
79702751 TGAGTCAGCG
Statistics
Matches: 117, Mismatches: 30, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
40 64 0.55
41 53 0.45
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
Found at i:79702696 original size:81 final size:81
Alignment explanation
Indices: 79702561--79702750 Score: 371
Period size: 81 Copynumber: 2.3 Consensus size: 81
79702551 TCGGGGTTTA
*
79702561 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCGAACCTAGTTTCGAAGGGCC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAACCTAGTTTCGAAGGGCC
79702626 TTCGGGCCAATGTCAT
66 TTCGGGCCAATGTCAT
79702642 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAACCTAGTTTCGAAGGGCC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAACCTAGTTTCGAAGGGCC
79702707 TTCGGGCCAATGTCAT
66 TTCGGGCCAATGTCAT
79702723 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
79702751 TGAGTCAGCG
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 108 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (81 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACCGAACCTAGTTTCGAAGGGCC
TTCGGGCCAATGTCAT
Found at i:79708471 original size:12 final size:13
Alignment explanation
Indices: 79708454--79708485 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
79708444 ATAGCACATT
79708454 TCAAAAC-ATGCA
1 TCAAAACTATGCA
79708466 TCAAAACTATGCA
1 TCAAAACTATGCA
79708479 -CAAAACT
1 TCAAAACT
79708486 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:79715787 original size:104 final size:104
Alignment explanation
Indices: 79715607--79715807 Score: 384
Period size: 104 Copynumber: 1.9 Consensus size: 104
79715597 AGGTTTTAAA
*
79715607 TTGTGCTACTCGGTTTTAAGCGAAAACGAGTAAAAGGGCTTAATCGGTAAAAATACCTAATAGTC
1 TTGTGCTACTCGGTTTTAAGCGAAAACGAGTAAAAGGGCTTAATCAGTAAAAATACCTAATAGTC
79715672 ATAAGTACATGTTAGAGTGTGAATTTGATGTTAGACAAC
66 ATAAGTACATGTTAGAGTGTGAATTTGATGTTAGACAAC
*
79715711 TTGTGCTACTCGGTTTTAAGTGAAAACGAGTAAAAGGGCTTAATCAGTAAAAATACCTAATAGTC
1 TTGTGCTACTCGGTTTTAAGCGAAAACGAGTAAAAGGGCTTAATCAGTAAAAATACCTAATAGTC
79715776 ATAAGTACATGTTAGAGTGTGAATTTGATGTT
66 ATAAGTACATGTTAGAGTGTGAATTTGATGTT
79715808 GCCATAGAAG
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 95 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.31
Consensus pattern (104 bp):
TTGTGCTACTCGGTTTTAAGCGAAAACGAGTAAAAGGGCTTAATCAGTAAAAATACCTAATAGTC
ATAAGTACATGTTAGAGTGTGAATTTGATGTTAGACAAC
Found at i:79715920 original size:30 final size:30
Alignment explanation
Indices: 79715879--79715938 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
79715869 TTCCCGAGCC
79715879 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
79715909 TAGGGGTAAAAGTGTAATTATGCCAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
79715939 CGTATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.05, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:79723704 original size:40 final size:40
Alignment explanation
Indices: 79723266--79723690 Score: 667
Period size: 40 Copynumber: 10.7 Consensus size: 40
79723256 TTGAATGATG
* * * * *
79723266 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *** * *
79723306 TCCGGACTAAGAGTCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
79723346 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79723385 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79723425 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79723465 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79723505 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79723545 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79723585 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79723625 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
79723666 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
79723691 AACGAGTAGC
Statistics
Matches: 362, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
39 33 0.09
40 319 0.88
41 10 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:79732146 original size:40 final size:40
Alignment explanation
Indices: 79731708--79732132 Score: 678
Period size: 40 Copynumber: 10.7 Consensus size: 40
79731698 TTGAATGATG
* * * * *
79731708 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
79731748 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
79731788 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79731827 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79731867 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79731907 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79731947 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79731987 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79732027 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79732067 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
79732108 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
79732133 AACGAGTAGC
Statistics
Matches: 365, Mismatches: 15, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
39 34 0.09
40 321 0.88
41 10 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:79738464 original size:26 final size:26
Alignment explanation
Indices: 79738425--79738533 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
79738415 TGATACAAAT
*
79738425 TGATAATGGGTTAGGTACATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
79738451 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
79738477 TGATAATGGGTTACGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
79738503 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79738529 TGATA
1 TGATA
79738534 GGCATTTCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:79740111 original size:22 final size:21
Alignment explanation
Indices: 79740084--79740124 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
79740074 CATGTTTGAC
*
79740084 TGTTGTGATTTACTGCATGCCA
1 TGTTGTGATTAACTG-ATGCCA
*
79740106 TGTTGTTATTAACTGATGC
1 TGTTGTGATTAACTGATGC
79740125 ATGGGATTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.44
Consensus pattern (21 bp):
TGTTGTGATTAACTGATGCCA
Found at i:79743814 original size:21 final size:21
Alignment explanation
Indices: 79743790--79743830 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
79743780 AAATTTAACA
*
79743790 TCAATTTAATCCATTTCATAC
1 TCAATTTAATCCAATTCATAC
*
79743811 TCAATTTAATTCAATTCATA
1 TCAATTTAATCCAATTCATA
79743831 TCCTAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.44
Consensus pattern (21 bp):
TCAATTTAATCCAATTCATAC
Found at i:79748195 original size:14 final size:15
Alignment explanation
Indices: 79748167--79748197 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
79748157 TAGTTAATCA
79748167 ATTAAACCTTTAATT
1 ATTAAACCTTTAATT
79748182 ATTAAACC-TTAATT
1 ATTAAACCTTTAATT
79748196 AT
1 AT
79748198 CATTAGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTAAACCTTTAATT
Found at i:79749741 original size:13 final size:13
Alignment explanation
Indices: 79749723--79749756 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
79749713 GAGCAAATTA
79749723 AAGACACACGGCC
1 AAGACACACGGCC
79749736 AAGACACACGGCC
1 AAGACACACGGCC
*
79749749 AAGTCACA
1 AAGACACA
79749757 TGCTCGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.35, G:0.21, T:0.03
Consensus pattern (13 bp):
AAGACACACGGCC
Found at i:79753968 original size:40 final size:40
Alignment explanation
Indices: 79753914--79754087 Score: 226
Period size: 40 Copynumber: 4.3 Consensus size: 40
79753904 CTCGCACAAG
* * * *
79753914 GCCTTCGGGTCTTAGTCCGG-ATGTGGTCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAAT
* *
79753954 TCCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAAT
*
79753994 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
* *
79754034 GCCTTCGGGACTTAGCCCGGAATTAATCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
*
79754074 GTCTTCGGGACTTA
1 GCCTTCGGGACTTA
79754088 ACCCCGTTAG
Statistics
Matches: 121, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 119 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
Found at i:79754014 original size:80 final size:80
Alignment explanation
Indices: 79753878--79754087 Score: 257
Period size: 80 Copynumber: 2.6 Consensus size: 80
79753868 ACCCAATTAT
* * * * * *
79753878 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGTCCGG-ATGTGG
1 CTTCGGGACTTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAG
* *
79753940 TCACTAGCACAAATTC
65 TAACTAGCACAAATGC
* *
79753956 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CTTCGGGACTTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
*
79754021 AACTCGCACAAATGC
66 AACTAGCACAAATGC
* *
79754036 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGTCTTCGGGACTTA
1 CTTCGGGACTTAGCCCGGATA-TAATCACTCGCACAAATGCCTTCGGGACTTA
79754088 ACCCCGTTAG
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
78 12 0.11
79 18 0.16
80 81 0.72
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
AACTAGCACAAATGC
Found at i:79755950 original size:22 final size:21
Alignment explanation
Indices: 79755922--79755964 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
79755912 TAGTATCACC
79755922 AAGCTACCTCAGGGATCGGAA
1 AAGCTACCTCAGGGATCGGAA
79755943 NAAGCTACCTCAGGGATCGGAA
1 -AAGCTACCTCAGGGATCGGAA
79755965 GACGTTAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.14
Consensus pattern (21 bp):
AAGCTACCTCAGGGATCGGAA
Found at i:79764920 original size:27 final size:27
Alignment explanation
Indices: 79764881--79765058 Score: 194
Period size: 27 Copynumber: 6.6 Consensus size: 27
79764871 ACATTGAGCC
* * * *
79764881 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
79764908 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
79764935 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
79764963 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * **
79764990 CGCACACTTAGTGCAACATATTCATTT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
79765017 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
79765044 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
79765059 GTACAATTTA
Statistics
Matches: 128, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:79765020 original size:82 final size:81
Alignment explanation
Indices: 79764902--79765057 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 81
79764892 TGCTATATAA
* * * *
79764902 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
79764967 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
79764984 TCAATTCGCACACTTAGTGCAACATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
79765049 ACTTAGTGC
66 ACTTAGTGC
79765058 TGTACAATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:79772529 original size:205 final size:205
Alignment explanation
Indices: 79772177--79772680 Score: 713
Period size: 205 Copynumber: 2.5 Consensus size: 205
79772167 TGGGGAGCAG
* * ** * * * * * * *
79772177 ATCGAAGATATAGCTGATTTGGATTTCACAAATTTATGATGAAGCAAATCCAAGATGATTTGTCG
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTACTTAAGTTAAAGCAAATCTAAGATGATTTGGCA
* * * * *
79772242 TCTCTGTAGTGTTAGAGAACAAATCGAAGTCTGGCATCTCTACTTCAATAGAGAGCAGATACATA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCAACTCCACTTCAATAGAGAGCAGACACATA
* * *
79772307 GCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
131 GCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTAGCATCCTTGTGCTTA
*
79772372 CAAGGAATAA
196 CAAGGAACAA
* *
79772382 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTACTTAAGTTAAAGCAAATCTAAGATGATTTGGCA
* * * *
79772447 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCAACTCCACTTCGATGGAGGGTAGACACATA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCAACTCCACTTCAATAGAGAGCAGACACATA
79772512 GCAGATC-CAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTAGCATCCTTGTGCTT
131 GCAGATCTC-ACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTAGCATCCTTGTGCTT
* *
79772576 ATAAGGAGCAA
195 ACAAGGAACAA
*
79772587 ATCGAAGACGTAGCTGATTTGGCTTTCACGTACTTAAGTTAAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTACTTAAGTTAAAGCAAATCTAAGATGATTTGGCA
* *
79772652 TCTCTGTATTGTCAGGGAACAAACCGAAG
66 TCTCTGTATTGTCAGAGAACAAATCGAAG
79772681 AAGCAGATTT
Statistics
Matches: 266, Mismatches: 32, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
204 1 0.00
205 265 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTACTTAAGTTAAAGCAAATCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCAACTCCACTTCAATAGAGAGCAGACACATA
GCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTAGCATCCTTGTGCTTA
CAAGGAACAA
Found at i:79772833 original size:45 final size:45
Alignment explanation
Indices: 79772754--79772859 Score: 142
Period size: 45 Copynumber: 2.4 Consensus size: 45
79772744 GAGTTTGCAA
* *
79772754 GGAGTAGATTGAAGA-AGCAAATTTGGCATCTCTGTATTAGACGG
1 GGAGTAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACGG
* *
79772798 GGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGG
1 GGAGTAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACGG
* * *
79772843 GAAGCAGATCAAAGATA
1 GGAGTAGATCGAAGATA
79772860 GTAGATATCG
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 14 0.26
45 40 0.74
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (45 bp):
GGAGTAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACGG
Found at i:79774594 original size:9 final size:9
Alignment explanation
Indices: 79774577--79774629 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
79774567 AATGTGTATG
*
79774577 TATTATATA
1 TATTTTATA
79774586 TATTTTATA
1 TATTTTATA
*
79774595 CATTTTATA
1 TATTTTATA
79774604 TATATTT-TA
1 TAT-TTTATA
79774613 TATATTTATTA
1 TAT-TTTA-TA
79774624 TATTTT
1 TATTTT
79774630 TATGTATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
9 27 0.71
10 6 0.16
11 5 0.13
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
TATTTTATA
Found at i:79774604 original size:20 final size:19
Alignment explanation
Indices: 79774579--79774629 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
79774569 TGTGTATGTA
79774579 TTATATATATTTTATACATT
1 TTATATATATTTTATACA-T
*
79774599 TTATATATATTTTATATAT
1 TTATATATATTTTATACAT
79774618 TTAT-TATATTTT
1 TTATATATATTTT
79774630 TATGTATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 17 0.57
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATATATATTTTATACAT
Found at i:79774605 original size:11 final size:11
Alignment explanation
Indices: 79774579--79774674 Score: 67
Period size: 11 Copynumber: 8.5 Consensus size: 11
79774569 TGTGTATGTA
79774579 TTATATATA-T
1 TTATATATATT
*
79774589 TT-TATACATT
1 TTATATATATT
79774599 TTATATATATT
1 TTATATATATT
79774610 TTATATAT-TT
1 TTATATATATT
79774620 ATTATAT-T-TT
1 -TTATATATATT
*
79774630 TATGTATATATTT
1 T-TATATATA-TT
79774643 TTAATATCATATT
1 TT-ATAT-ATATT
*
79774656 ATTCATATATTTT
1 -TT-ATATATATT
79774669 TTATAT
1 TTATAT
79774675 TATGTAAATA
Statistics
Matches: 70, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
9 6 0.09
10 14 0.20
11 26 0.37
12 3 0.04
13 12 0.17
14 9 0.13
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (11 bp):
TTATATATATT
Found at i:79774654 original size:14 final size:14
Alignment explanation
Indices: 79774600--79774674 Score: 57
Period size: 14 Copynumber: 5.2 Consensus size: 14
79774590 TTATACATTT
79774600 TATATATATTTTATA
1 TATATATATTTT-TA
79774615 TATTTATTATATTTTTA
1 TA--TA-TATATTTTTA
*
79774632 TGTATATATTTTTA
1 TATATATATTTTTA
*
79774646 -ATATCATATTATT-
1 TATAT-ATATTTTTA
*
79774659 CATATAT-TTTTTA
1 TATATATATTTTTA
79774672 TAT
1 TAT
79774675 TATGTAAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
12 4 0.08
13 7 0.14
14 21 0.43
15 4 0.08
17 5 0.10
18 8 0.16
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (14 bp):
TATATATATTTTTA
Found at i:79774657 original size:25 final size:25
Alignment explanation
Indices: 79774629--79774714 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 25
79774619 TATTATATTT
79774629 TTATGTATATATTTTTAATATCATA
1 TTATGTATATATTTTTAATATCATA
79774654 TTAT-TCATATA-TTTT--T-T-ATA
1 TTATGT-ATATATTTTTAATATCATA
* * *
79774674 TTATGTAAATATTTTCAATA-CTACA
1 TTATGTATATATTTTTAATATC-ATA
79774699 TTATGTATATATTTTT
1 TTATGTATATATTTTT
79774715 GTCTATATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
20 11 0.23
21 5 0.10
22 1 0.02
23 1 0.02
24 5 0.10
25 25 0.52
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (25 bp):
TTATGTATATATTTTTAATATCATA
Found at i:79774702 original size:45 final size:45
Alignment explanation
Indices: 79774611--79774714 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 45
79774601 ATATATATTT
* * * *
79774611 TATATATTTATTATATTTTTATGTATATATTTTTAATATCATATTAT-
1 TATATATTT-TT-TA-TATTATGTAAATATTTTCAATATCACATTATG
79774658 TCATATATTTTTTATATTATGTAAATATTTTCAATA-CTACATTATG
1 T-ATATATTTTTTATATTATGTAAATATTTTCAATATC-ACATTATG
79774704 TATATATTTTT
1 TATATATTTTT
79774715 GTCTATATTG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
44 1 0.02
45 35 0.70
46 3 0.06
47 3 0.06
48 8 0.16
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.59
Consensus pattern (45 bp):
TATATATTTTTTATATTATGTAAATATTTTCAATATCACATTATG
Found at i:79774995 original size:26 final size:26
Alignment explanation
Indices: 79774965--79775016 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
79774955 ATTATGTATA
*
79774965 TATTTTTAATACTACGTATACATTTT
1 TATTTCTAATACTACGTATACATTTT
* * *
79774991 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATACATTTT
79775017 AATACATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.58
Consensus pattern (26 bp):
TATTTCTAATACTACGTATACATTTT
Found at i:79776592 original size:23 final size:23
Alignment explanation
Indices: 79776565--79776610 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
79776555 ATATCAATAT
79776565 AAAATGAACAACATCACAGTTAA
1 AAAATGAACAACATCACAGTTAA
79776588 AAAATGAACAACATCACAGTTAA
1 AAAATGAACAACATCACAGTTAA
79776611 CATAATCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.17, G:0.09, T:0.17
Consensus pattern (23 bp):
AAAATGAACAACATCACAGTTAA
Found at i:79777873 original size:24 final size:23
Alignment explanation
Indices: 79777846--79777902 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
79777836 ACCCAATCCC
* * *
79777846 TAAACCCATAAACCCATTCCAACT
1 TAAACCCA-AAACCCAATACAAAT
79777870 TAAACCCCAAAACCCAATACAAAT
1 TAAA-CCCAAAACCCAATACAAAT
79777894 TAAACCCAA
1 TAAACCCAA
79777903 CTAACCCATC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.17
24 20 0.69
25 4 0.14
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (23 bp):
TAAACCCAAAACCCAATACAAAT
Found at i:79779442 original size:22 final size:22
Alignment explanation
Indices: 79779417--79779482 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 22
79779407 TATGTTTTCT
79779417 TTTAATATTTTATATATTATTA
1 TTTAATATTTTATATATTATTA
79779439 TTTACATATTTTGATATCATTAGTTA
1 TTTA-ATATTTT-ATAT-ATTA-TTA
*
79779465 TAT-AT-TTTTATATATTAT
1 TTTAATATTTTATATATTAT
79779483 GTATATTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
20 1 0.03
21 4 0.10
22 8 0.21
23 11 0.28
24 6 0.15
25 4 0.10
26 5 0.13
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (22 bp):
TTTAATATTTTATATATTATTA
Found at i:79779531 original size:26 final size:29
Alignment explanation
Indices: 79779484--79779536 Score: 76
Period size: 26 Copynumber: 1.9 Consensus size: 29
79779474 ATATATTATG
*
79779484 TATATTTCTTTTACTATTTCATGTATATA
1 TATATTTCTTTTACTATCTCATGTATATA
79779513 TATATTT-TTTT-C-ATCTCATGTATA
1 TATATTTCTTTTACTATCTCATGTATA
79779537 AATTTTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 11 0.48
27 1 0.04
28 4 0.17
29 7 0.30
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.58
Consensus pattern (29 bp):
TATATTTCTTTTACTATCTCATGTATATA
Found at i:79779832 original size:10 final size:10
Alignment explanation
Indices: 79779817--79779841 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
79779807 ATATGTTTAT
79779817 TATATATGTA
1 TATATATGTA
79779827 TATATATGTA
1 TATATATGTA
79779837 TATAT
1 TATAT
79779842 TTTTTAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (10 bp):
TATATATGTA
Found at i:79779832 original size:23 final size:23
Alignment explanation
Indices: 79779790--79779835 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
79779780 CATCTTATTA
79779790 TTATTATTATTATTAGTATATGT
1 TTATTATTATTATTAGTATATGT
79779813 TTATTATATATGTA-TA-TATATGT
1 TTATTAT-TAT-TATTAGTATATGT
79779836 ATATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 14 0.67
24 5 0.24
25 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (23 bp):
TTATTATTATTATTAGTATATGT
Found at i:79791551 original size:40 final size:39
Alignment explanation
Indices: 79791499--79791770 Score: 339
Period size: 40 Copynumber: 6.8 Consensus size: 39
79791489 TATAACCACA
79791499 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATC-ACT
* *
79791539 CGCACAAATGCCTTC-GGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCACT
* * * *
79791578 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATC-ACT
* *
79791618 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCACT
* * * *
79791658 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATC-ACT
* *
79791698 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCACT
* *
79791738 AGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
79791771 CATTCAAATG
Statistics
Matches: 196, Mismatches: 30, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
39 38 0.19
40 152 0.78
41 6 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCACT
Found at i:79791675 original size:80 final size:80
Alignment explanation
Indices: 79791499--79791766 Score: 475
Period size: 80 Copynumber: 3.4 Consensus size: 80
79791489 TATAACCACA
* * * *
79791499 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTC-GGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
79791563 CCGGATAAAATCACT
66 CCGGATAAAATCACT
79791578 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
79791643 CCGGATAAAATCACT
66 CCGGATAAAATCACT
79791658 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
79791723 CCGGATAAAATCACT
66 CCGGATAAAATCACT
* *
79791738 AGCACAATTGCCTTCGGGACTTAGCCCGG
1 AGCACAATTGCCTTCGGGTCTTAACCCGG
79791767 ATATCATTCA
Statistics
Matches: 182, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
79 51 0.28
80 131 0.72
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCGGATAAAATCACT
Found at i:79794908 original size:43 final size:42
Alignment explanation
Indices: 79794848--79794963 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 42
79794838 AAAAAGAAGG
79794848 AAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATGAAC
1 AAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATGAAC
* * *
79794890 AAAAGGATCAAGGTGAAAACCTGAAAAGGGCGTTTTGATTAACAC
1 AAAA-GATCAAGGTGAAAACCCGAAAAGGGCGTCTTGA-TGA-AC
*
79794935 AAAAGAT-TAGGATGAAAACCC-AAAAGGGC
1 AAAAGATCAAGG-TGAAAACCCGAAAAGGGC
79794964 ATTCTAATGA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
42 4 0.06
43 42 0.65
44 13 0.20
45 6 0.09
ACGTcount: A:0.45, C:0.15, G:0.25, T:0.16
Consensus pattern (42 bp):
AAAAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATGAAC
Found at i:79795900 original size:14 final size:14
Alignment explanation
Indices: 79795881--79795916 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
79795871 CGTCGAGGTA
*
79795881 TTTTCAAATTCTGT
1 TTTTCAAATTCTAT
79795895 TTTTCAAATTCTAT
1 TTTTCAAATTCTAT
79795909 TTTTCAAA
1 TTTTCAAA
79795917 AATCAACTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.28, C:0.14, G:0.03, T:0.56
Consensus pattern (14 bp):
TTTTCAAATTCTAT
Found at i:79795969 original size:89 final size:87
Alignment explanation
Indices: 79795825--79796641 Score: 535
Period size: 89 Copynumber: 9.4 Consensus size: 87
79795815 TACTTTTCAA
* *
79795825 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCACG-TCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGTCACACGCT-GAGGTATTTTCAAA
79795889 TTCTGTTTTTCAAATTCTATTTTTC
64 TTCTGTTTTTCAAATT-TATTTTTC
* **
79795914 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTC-AAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG-TCACACGCTGAGGTATTTTCAAAT
*
79795978 TCCCGTTTTTC--A---A------
65 T-CTGTTTTTCAAATTTATTTTTC
* * * *
79795991 AAAAATCAACTCATGTTGCGAGAAGTGAGTTGAGCCTCAGGTCTCACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGTCACACGCTGAGGTATTTTCAAAT
* *
79796056 TCTGTTTTTCAATTTCTATTTGTC
65 TCTGTTTTTCAAATT-TATTTTTC
* *
79796080 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACA--CTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGTCACACGCTGAGGTATTTTCAAAT
* * *
79796143 TCCG-TTTTCCAACTTATGCTTTTC
65 TCTGTTTTTCAAATTTAT--TTTTC
* * *
79796167 AAAAAGATCAATTTATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAAGTATTTTC-A
1 -AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGTCACACGCTGAGGTATTTTCAA
*
79796229 ATTCCTGATTTTTTTCAATTTATATTTTTC
63 ATT-CTG---TTTTTCAAATT-TATTTTTC
* *
79796259 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTGTT
1 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGTCACACGCTGAGGTATT-TT
* ***
79796324 ---A----G--TTT-ATA-TT-TTTCAA
60 CAAATTCTGTTTTTCAAATTTATTTTTC
* * *
79796340 AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGG--ACACACTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGTCACACGCTGAGGTATTTTCAAAT
* *
79796403 TCTGCTTTTT-AATTTTTGTTTTTC
65 TCTG-TTTTTCAA-ATTTATTTTTC
* * **
79796427 AAGAAAATCAA-TCCATATTGCGAGAGGTGAGTTGAGCCTTGGTTTACGTGCTGAGGTATTTTCA
1 -A-AAAATCAACT-CATATTGCGAGAGGTGAGTTGAGCCTAGG-TCACACGCTGAGGTATTTTCA
* **
79796491 ATTTCTGTTCTTTCAAA-TTAAGTTTC
62 AATTCTGTT-TTTCAAATTTATTTTTC
* * * * ** *
79796517 AAAAAAACCAACTCATATTCCGAGAGGTAAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTC-A
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG-TCACACGCTGAGGTATTTTCAA
* *
79796581 ATTGCTGTTATT--AATGTCTGTTTTT-
63 ATT-CTGTTTTTCAAAT-T-TATTTTTC
* * **
79796606 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGC
79796642 TCAGGATCAC
Statistics
Matches: 587, Mismatches: 78, Indels: 127
0.74 0.10 0.16
Matches are distributed among these distances:
74 2 0.00
75 13 0.02
77 99 0.17
78 5 0.01
81 4 0.01
82 1 0.00
83 3 0.01
84 5 0.01
85 6 0.01
86 9 0.02
87 36 0.06
88 42 0.07
89 191 0.33
90 70 0.12
91 29 0.05
92 7 0.01
93 7 0.01
94 37 0.06
95 6 0.01
96 13 0.02
97 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGTCACACGCTGAGGTATTTTCAAATT
CTGTTTTTCAAATTTATTTTTC
Found at i:79796020 original size:77 final size:77
Alignment explanation
Indices: 79795914--79796150 Score: 221
Period size: 77 Copynumber: 2.9 Consensus size: 77
79795904 TCTATTTTTC
* *
79795914 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCCAAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG-TCACACGCCAAGGTATTTTCAAT
79795978 TCCCGTTTTTCAA
65 TCCCGTTTTTCAA
* * **
79795991 AAAAATCAACTCATGTTGCGAGAAGTGAGTTGAGCCTCAGGTCTCACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAATT
* *
79796056 TCTGTTTTTCAATTTCTA
66 CCCGTTTTTC-A-----A
* *
79796074 TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTG---AGGTATT
1 ------AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCACAC-GCCAAGGTATT
*
79796136 TTCAATTTCCGTTTT
59 TTCAATTCCCGTTTT
79796151 CCAACTTATG
Statistics
Matches: 133, Mismatches: 13, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
77 64 0.48
78 3 0.02
83 1 0.01
87 21 0.16
89 43 0.32
90 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (77 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAATT
CCCGTTTTTCAA
Found at i:79796021 original size:166 final size:166
Alignment explanation
Indices: 79795747--79796493 Score: 723
Period size: 166 Copynumber: 4.4 Consensus size: 166
79795737 GATTTCTGTC
* * *
79795747 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTAAG--ACACGTTAAGGTATTTTCA
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGTCACACGCTAAGGTATTTTCA
*** * *
79795810 ATTTTTACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCACG-T
65 ATTCCCACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCT
*
79795874 CGAGGTATTTTCAAATTCTG-TTTTTCAAATTCTATTT
130 -GAGGTATTTTCAAATTCTGTTTTTTCAATTTCTATTT
*
79795911 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCA
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-TCACACGCTAAGGTATTTTCA
** * * *
79795976 ATTCCCGTTTTTCAAAAAAATCAACTCATGTTGCGAGAAGTGAGTTGAGCCTCAGGTCTCACGCT
65 ATTCCCACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCT
*
79796041 GAGGTATTTTCAATTTCTG-TTTTTCAATTTCTATTT
130 GAGGTATTTTCAAATTCTGTTTTTTCAATTTCTATTT
* * * *
79796077 GTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACA--CTGAGGTATTTTCA
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTCACACGCTAAGGTATTTTCA
* * *
79796140 ATTTCCGTTTTCCAACTTATGCTTTTCAAAAAGATCAATTTATATTGCGAGAGGTGAGTTGAGCC
65 A--------TTCC--C--A--CTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
79796205 TCAGG--ACACGCTGAAGTATTTTC-AATTCCTGATTTTTTTCAATTTATATTT
116 TCAGGTCACACGCTGAGGTATTTTCAAATT-CTG--TTTTTTCAATTTCTATTT
* * *
79796256 TTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATT
1 TTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTCACACGCTAAGGTATT
* *** * *
79796321 GTT-AGTTTATATTTTTCAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGG--AC
61 -TTCAATTCCCACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
* * * * *
79796383 ACACTGAGGTATTTTCAATTTCTGCTTTTT-AATTTTTGTTT
125 ACGCTGAGGTATTTTCAAATTCTGTTTTTTCAATTTCTATTT
* ** *
79796424 TTCAAGAAAATCAA-TCCATATTGCGAGAGGTGAGTTGAGCCTTGGTTTACGTGCTGAGGTATTT
1 TTC-A-AAAATCAACT-CATATTGCGAGAGGTGAGTTGAGCCTTGG-TCACACGCTAAGGTATTT
79796488 TCAATT
62 TCAATT
79796494 TCTGTTCTTT
Statistics
Matches: 493, Mismatches: 55, Indels: 68
0.80 0.09 0.11
Matches are distributed among these distances:
163 1 0.00
164 53 0.11
165 7 0.01
166 199 0.40
167 3 0.01
168 12 0.02
169 5 0.01
171 63 0.13
172 7 0.01
173 1 0.00
174 1 0.00
175 3 0.01
176 19 0.04
177 2 0.00
178 43 0.09
179 18 0.04
183 43 0.09
185 11 0.02
186 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (166 bp):
TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACACGCTAAGGTATTTTCAA
TTCCCACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTG
AGGTATTTTCAAATTCTGTTTTTTCAATTTCTATTT
Found at i:79796377 original size:260 final size:254
Alignment explanation
Indices: 79796080--79796555 Score: 652
Period size: 260 Copynumber: 1.8 Consensus size: 254
79796070 TCTATTTGTC
* *
79796080 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTC
**
79796145 CG-TTTTCCAACTTATGCTTTTCAA-AAAGATCAATTTATATTGCGAGAGGTGAGTTGAGCCTCA
66 CGCTTTT-CAACTTATGCTTTTCAAGAAA-ATCAATCCATATTGCGAGAGGTGAGTTGAGCCT-A
* * * *
79796208 GG-ACACGCTGAAGTATTTTCAATTCCTGATTTTTTTCAATTTATATTTTTCAAAAAAAAATCAA
128 GGTACACGCTGAAGTATTTTCAATTCCTG--TTCTTTCAAATTA-A-GTTTC--AAAAAAACCAA
* *
79796272 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTGTTAGTTTATATTTTT
187 CTCATATTCCGAGAGGTAAGTTGAGCCTCGGGTCGCACGCTGAGGTATTGTTAGTTTATATTTTT
79796337 CAA
252 CAA
79796340 AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTC
* * * * * *
79796405 TGCTTTTTAATTTTTGTTTTTCAAGAAAATCAATCCATATTGCGAGAGGTGAGTTGAGCCTTGGT
66 CGCTTTTCAACTTATGCTTTTCAAGAAAATCAATCCATATTGCGAGAGGTGAGTTGAGCCTAGG-
** * *
79796470 TTACGTGCTGAGGTATTTTCAATTTCTGTTCTTTCAAATTAAGTTTCAAAAAAACCAACTCATAT
130 -TACACGCTGAAGTATTTTCAATTCCTGTTCTTTCAAATTAAGTTTCAAAAAAACCAACTCATAT
79796535 TCCGAGAGGTAAGTTGAGCCT
194 TCCGAGAGGTAAGTTGAGCCT
79796556 TGGCTCACGT
Statistics
Matches: 191, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
256 36 0.19
258 4 0.02
259 3 0.02
260 119 0.62
261 7 0.04
262 22 0.12
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (254 bp):
AAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTC
CGCTTTTCAACTTATGCTTTTCAAGAAAATCAATCCATATTGCGAGAGGTGAGTTGAGCCTAGGT
ACACGCTGAAGTATTTTCAATTCCTGTTCTTTCAAATTAAGTTTCAAAAAAACCAACTCATATTC
CGAGAGGTAAGTTGAGCCTCGGGTCGCACGCTGAGGTATTGTTAGTTTATATTTTTCAA
Found at i:79796451 original size:349 final size:342
Alignment explanation
Indices: 79795817--79796555 Score: 895
Period size: 349 Copynumber: 2.1 Consensus size: 342
79795807 TCAATTTTTA
* * *
79795817 CTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCACGTCGAGGTAT
1 CTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGTCGAAGTAT
*
79795882 TTTCAAATTCTGTTTTTCAAATTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
65 TTTCAAATTCTGTTTTTCAAATTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * * *
79795947 GCCTTGGCTCACACGCCAAGGTATTTTCAATTCCCGTTTTTCAAAAAAATCAACTCATGTTGCGA
130 GCCTCGGCTCACACGCCAAGGTATTTTCAATTCACATTTTTCAAAAAAATCAACTCATATTGAGA
* *
79796012 GAAGTGAGTTGAGCCTCAGGTCTCACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTATTT
195 GAAGTGAGTTGAGCCTCAGG-CACACACTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTATTT
79796077 GTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGTATTTTCAAT
259 GTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGTATTTTCAAT
79796142 TTCCGTTTTCCAACTTATG
324 TTCCGTTTTCCAACTTATG
* * *
79796161 CTTTTCAAAAAGATCAATTTATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACG-CTGAAGTAT
1 CTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGTC-GAAGTAT
*
79796224 TTTC-AATTCCTGATTTTTTTCAATTTATATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGG
65 TTTCAAATT-CTG---TTTTTCAAATTATATTTTTC----AAAAATCAACTCATATTGCGAGAGG
* * ** * * *
79796288 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTGTT-AGTTTATATTTTTCAAAAAAATCAACTC
122 TGAGTTGAGCCTCGGCTCACACGCCAAGGTATT-TTCAATTCACATTTTTCAAAAAAATCAACTC
*
79796352 ATATTGAGAGAGGTGAGTTGAGCCTCAGG-ACACACTGAGGTATTTTCAATTTCTGCTTTTT-AA
186 ATATTGAGAGAAGTGAGTTGAGCCTCAGGCACACACTGAGGTATTTTCAATTTCTG-TTTTTCAA
* * * * ** *
79796415 TTTTTGTTTTTCAAGAAAATCAA-TCCATATTGCGAGAGGTGAGTTGAGCCT-TGGTTTACGTGC
250 TTTCTATTTGTC-A-AAAATCAACT-CATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCAC--AC
* * * *
79796478 TGAGGTATTTTCAATTTCTGTTCTTTCAAATTAAG
309 TGAGGTATTTTCAATTTCCGTT-TTCCAACTTATG
* * *
79796513 --TTTCAAAAAAACCAACTCATATTCCGAGAGGTAAGTTGAGCCT
1 CTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
79796556 TGGCTCACGT
Statistics
Matches: 337, Mismatches: 40, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
341 5 0.01
342 17 0.05
344 45 0.13
345 18 0.05
347 35 0.10
348 9 0.03
349 138 0.41
350 39 0.12
351 22 0.07
352 9 0.03
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (342 bp):
CTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGTCGAAGTATT
TTCAAATTCTGTTTTTCAAATTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGGCTCACACGCCAAGGTATTTTCAATTCACATTTTTCAAAAAAATCAACTCATATTGAGAG
AAGTGAGTTGAGCCTCAGGCACACACTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTATTTGT
CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGTATTTTCAATTT
CCGTTTTCCAACTTATG
Found at i:79796550 original size:90 final size:87
Alignment explanation
Indices: 79796333--79796594 Score: 278
Period size: 90 Copynumber: 2.9 Consensus size: 87
79796323 TAGTTTATAT
* * ***
79796333 TTTTCAAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGG-ACACACTGAGGTATTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTACGTGCTGAGGTATTT
* **
79796397 TCAATTTCTGCTTTTTAATTTTTG
65 TCAATTTCTG-TTTTTAAATTAAG
*
79796421 TTTTTCAAGAAAATCAA-TCCATATTGCGAGAGGTGAGTTGAGCCTTGGTTTACGTGCTGAGGTA
1 -TTTTCAAAAAAATCAACT-CATATTGCGAGAGGTGAGTTGAGCCTTGG--TACGTGCTGAGGTA
79796485 TTTTCAATTTCTGTTCTTTCAAATTAAG
62 TTTTCAATTTCTGTT-TTT-AAATTAAG
* * * *
79796513 -TTTCAAAAAAACCAACTCATATTCCGAGAGGTAAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-T-ACGTGCTGAGGTATT
* *
79796577 TTCAATTGCTGTTATTAA
64 TTCAATTTCTGTTTTTAA
79796595 TGTCTGTTTT
Statistics
Matches: 148, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
88 5 0.03
89 43 0.29
90 68 0.46
91 27 0.18
92 5 0.03
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (87 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTACGTGCTGAGGTATTTT
CAATTTCTGTTTTTAAATTAAG
Found at i:79798212 original size:6 final size:6
Alignment explanation
Indices: 79798140--79798230 Score: 53
Period size: 6 Copynumber: 15.3 Consensus size: 6
79798130 ATTTATTTAT
* * * * * * *
79798140 TTATT- TTATTT TTATTT TTAATA TTGTTA TTATTA GTCTTA ATATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * *
79798187 TTAATA CTT-TTA TT-TCTA TTATTA TTATTG TTATTA TTAATA TT
1 TTATTA -TTATTA TTAT-TA TTATTA TTATTA TTATTA TTATTA TT
79798231 CTGGTTATTA
Statistics
Matches: 67, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
5 8 0.12
6 56 0.84
7 3 0.04
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (6 bp):
TTATTA
Found at i:79798215 original size:9 final size:9
Alignment explanation
Indices: 79798140--79798230 Score: 53
Period size: 9 Copynumber: 10.2 Consensus size: 9
79798130 ATTTATTTAT
79798140 TTATT-TTA
1 TTATTATTA
* *
79798148 TTTTTATTT
1 TTATTATTA
* *
79798157 TTAATATTG
1 TTATTATTA
79798166 TTATTATTA
1 TTATTATTA
* * *
79798175 GTCTTAATA
1 TTATTATTA
*
79798184 TTATTAATA
1 TTATTATTA
79798193 CTT-TTATT-
1 -TTATTATTA
79798201 TCTATTATTA
1 T-TATTATTA
*
79798211 TTATTGTTA
1 TTATTATTA
*
79798220 TTATTAATA
1 TTATTATTA
79798229 TT
1 TT
79798231 CTGGTTATTA
Statistics
Matches: 62, Mismatches: 16, Indels: 9
0.71 0.18 0.10
Matches are distributed among these distances:
7 1 0.02
8 5 0.08
9 53 0.85
10 3 0.05
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (9 bp):
TTATTATTA
Found at i:79798540 original size:22 final size:22
Alignment explanation
Indices: 79798515--79798580 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 22
79798505 TATGTTTTCT
79798515 TTTAATATTTTATATATTATTA
1 TTTAATATTTTATATATTATTA
79798537 TTTACATATTTTGATATCATTAGTTA
1 TTTA-ATATTTT-ATAT-ATTA-TTA
*
79798563 TAT-AT-TTTTATATATTAT
1 TTTAATATTTTATATATTAT
79798581 GTATATTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
20 1 0.03
21 4 0.10
22 8 0.21
23 11 0.28
24 6 0.15
25 4 0.10
26 5 0.13
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (22 bp):
TTTAATATTTTATATATTATTA
Found at i:79798629 original size:26 final size:29
Alignment explanation
Indices: 79798582--79798634 Score: 76
Period size: 26 Copynumber: 1.9 Consensus size: 29
79798572 ATATATTATG
*
79798582 TATATTTCTTTTACTATTTCATGTATATA
1 TATATTTCTTTTACTATCTCATGTATATA
79798611 TATATTT-TTTT-C-ATCTCATGTATA
1 TATATTTCTTTTACTATCTCATGTATA
79798635 AATTTTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 11 0.48
27 1 0.04
28 4 0.17
29 7 0.30
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.58
Consensus pattern (29 bp):
TATATTTCTTTTACTATCTCATGTATATA
Found at i:79798937 original size:10 final size:10
Alignment explanation
Indices: 79798922--79798946 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
79798912 ATATGTTTAT
79798922 TATATATGTA
1 TATATATGTA
79798932 TATATATGTA
1 TATATATGTA
79798942 TATAT
1 TATAT
79798947 TTTTTAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (10 bp):
TATATATGTA
Found at i:79798937 original size:23 final size:23
Alignment explanation
Indices: 79798895--79798940 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
79798885 CTTATTATTA
79798895 TTATTATTATTATTAGTATATGT
1 TTATTATTATTATTAGTATATGT
79798918 TTATTATATATGTA-TA-TATATGT
1 TTATTAT-TAT-TATTAGTATATGT
79798941 ATATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 14 0.67
24 5 0.24
25 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (23 bp):
TTATTATTATTATTAGTATATGT
Found at i:79802676 original size:24 final size:22
Alignment explanation
Indices: 79802629--79802676 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
79802619 ACCATGGTGG
79802629 AATTGCACTTAAGGCTTGGGTA
1 AATTGCACTTAAGGCTTGGGTA
* *
79802651 AATTGCATGTTAAGGACTTGGTTA
1 AATTGCA-CTTAAGG-CTTGGGTA
79802675 AA
1 AA
79802677 CACTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 6 0.27
24 9 0.41
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (22 bp):
AATTGCACTTAAGGCTTGGGTA
Found at i:79810205 original size:25 final size:25
Alignment explanation
Indices: 79810164--79810247 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
79810154 CTGGAGGCCT
79810164 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
**
79810188 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
79810213 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
79810239 AGCCCTTTT
1 AGCCCTTTT
79810248 GCACTTCCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.09
24 5 0.09
25 33 0.62
26 10 0.19
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:79810330 original size:11 final size:11
Alignment explanation
Indices: 79810314--79810352 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
79810304 GCATTTCAAA
79810314 CATATCATGTG
1 CATATCATGTG
*
79810325 CATATCATAT-
1 CATATCATGTG
79810335 -ATATCATGTG
1 CATATCATGTG
79810345 CATATCAT
1 CATATCAT
79810353 ATCAATCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (11 bp):
CATATCATGTG
Found at i:79810340 original size:9 final size:10
Alignment explanation
Indices: 79810314--79810373 Score: 54
Period size: 9 Copynumber: 6.1 Consensus size: 10
79810304 GCATTTCAAA
*
79810314 CATATCATGT
1 CATATCATAT
79810324 GCATATCATAT
1 -CATATCATAT
*
79810335 -ATATCATGT
1 CATATCATAT
79810344 GCATATCATAT
1 -CATATCATAT
*
79810355 CA-ATCATGT
1 CATATCATAT
79810364 -ATATCATAT
1 CATATCATAT
79810373 C
1 C
79810374 CAACGTATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.03
9 20 0.50
10 2 0.05
11 17 0.43
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.38
Consensus pattern (10 bp):
CATATCATAT
Found at i:79810352 original size:20 final size:20
Alignment explanation
Indices: 79810297--79810372 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
79810287 TTATGAATAC
* * *
79810297 ATCATGTGCATTTCAAACAT
1 ATCATGTGCATATCATATAT
79810317 ATCATGTGCATATCATATAT
1 ATCATGTGCATATCATATAT
79810337 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATAT-AT
79810357 ATCATGT--ATATCATAT
1 ATCATGTGCATATCATAT
79810373 CCAACGTATC
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 9 0.17
20 42 0.81
21 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATATAT
Found at i:79818305 original size:26 final size:26
Alignment explanation
Indices: 79818221--79818356 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
79818211 TTGGAGGCCT
79818221 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
79818245 AGCCCTTTTCGGTAAACCGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
79818270 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
79818296 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
79818322 AGCCCTTCTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
79818348 AGCCCTTTT
1 AGCCCTTTT
79818357 GCACTTCCTC
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 31 0.32
26 55 0.57
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:79818346 original size:52 final size:51
Alignment explanation
Indices: 79818234--79818356 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 51
79818224 CTCTTTTAAT
*
79818234 AACTGGGGCA-AAGCCCTTTTCGGTAAACCGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACCGGGGCAAAGCCCTTCTCAATA
*
79818284 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTCTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACCGGGGCA-AAGCCCTTCTCAATA
*
79818336 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
79818357 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 10 0.15
51 24 0.35
52 34 0.50
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (51 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACCGGGGCAAAGCCCTTCTCAATA
Found at i:79818431 original size:20 final size:20
Alignment explanation
Indices: 79818406--79818462 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
79818396 TTATGAATAC
*
79818406 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
79818425 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
79818446 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
79818463 CCACGTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:79821887 original size:34 final size:34
Alignment explanation
Indices: 79821834--79821902 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
79821824 ATTAAGAGAG
*
79821834 ATAGCAGTGTTTGATGGAATAGTGGATGTAGTCA
1 ATAGCAGTGTTTGACGGAATAGTGGATGTAGTCA
*
79821868 ATAGTAGTGTTTGACGGAATAGTGGATGTAGTCA
1 ATAGCAGTGTTTGACGGAATAGTGGATGTAGTCA
79821902 A
1 A
79821903 AGATCTCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.06, G:0.32, T:0.32
Consensus pattern (34 bp):
ATAGCAGTGTTTGACGGAATAGTGGATGTAGTCA
Found at i:79823454 original size:26 final size:27
Alignment explanation
Indices: 79823425--79823480 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
79823415 TACCAGAGGT
* *
79823425 AAAATTGTTAAAATTTTA-TCGGGGTA
1 AAAATCGTTAAAATTTTAGTAGGGGTA
79823451 AAAATCGTTAAAATTTTAGTAGGGGTA
1 AAAATCGTTAAAATTTTAGTAGGGGTA
79823478 AAA
1 AAA
79823481 TAGAGAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.34
Consensus pattern (27 bp):
AAAATCGTTAAAATTTTAGTAGGGGTA
Found at i:79823857 original size:30 final size:30
Alignment explanation
Indices: 79823821--79823882 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
79823811 GGAGTGATTG
79823821 TCACTCTACCGAAAACTAGAGAGAATTTAT
1 TCACTCTACCGAAAACTAGAGAGAATTTAT
79823851 TCACTCTACCGAAAACTAGAGAGAATTTAT
1 TCACTCTACCGAAAACTAGAGAGAATTTAT
79823881 TC
1 TC
79823883 TCAACTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (30 bp):
TCACTCTACCGAAAACTAGAGAGAATTTAT
Found at i:79824289 original size:13 final size:14
Alignment explanation
Indices: 79824255--79824304 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
79824245 TTGGTTTAAA
79824255 AAATT-ATTTAATT
1 AAATTAATTTAATT
*
79824268 GAAAATTAATTTAGTT
1 --AAATTAATTTAATT
*
79824284 -AATTAAATTAATT
1 AAATTAATTTAATT
79824297 AAATTAAT
1 AAATTAAT
79824305 AGAATAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 11 0.38
14 6 0.21
15 5 0.17
16 7 0.24
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (14 bp):
AAATTAATTTAATT
Found at i:79824294 original size:9 final size:9
Alignment explanation
Indices: 79824270--79824304 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
79824260 ATTTAATTGA
79824270 AAATTAATT
1 AAATTAATT
* *
79824279 TAGTTAATT
1 AAATTAATT
79824288 AAATTAATT
1 AAATTAATT
79824297 AAATTAAT
1 AAATTAAT
79824305 AGAATAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (9 bp):
AAATTAATT
Found at i:79841924 original size:20 final size:21
Alignment explanation
Indices: 79841887--79841925 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
79841877 CTCTCTACCA
*
79841887 TAAAATTTTCAGAATTTATAG
1 TAAAATCTTCAGAATTTATAG
79841908 TAAAATCTTCA-AATTTAT
1 TAAAATCTTCAGAATTTAT
79841926 CCCTATTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (21 bp):
TAAAATCTTCAGAATTTATAG
Found at i:79846688 original size:15 final size:15
Alignment explanation
Indices: 79846668--79846697 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
79846658 AATAATAATT
79846668 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
79846683 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
79846698 GCTAAGTAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:79846792 original size:15 final size:15
Alignment explanation
Indices: 79846772--79846802 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
79846762 AAAAGTATTA
79846772 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
79846787 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
79846802 A
1 A
79846803 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:79846890 original size:16 final size:17
Alignment explanation
Indices: 79846871--79846908 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
79846861 AAAAGGAAAT
*
79846871 AATAATGTGGTAA-AAA
1 AATAATATGGTAATAAA
*
79846887 AATAATATGTTAATAAA
1 AATAATATGGTAATAAA
79846904 AATAA
1 AATAA
79846909 CAGTAGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (17 bp):
AATAATATGGTAATAAA
Found at i:79846924 original size:3 final size:3
Alignment explanation
Indices: 79846918--79846977 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
79846908 ACAGTAGTAG
* * * *
79846918 TAA TAA TAA -AA -AA GTAA TAG TAA TAA AAA TAA AAA TAA AAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
79846962 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
79846978 GTTAATGGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
2 4 0.09
3 41 0.87
4 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:79848062 original size:19 final size:19
Alignment explanation
Indices: 79848038--79848075 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
79848028 TTTTGGGCTG
79848038 TTGGGTATTTTAGTTTGGT
1 TTGGGTATTTTAGTTTGGT
79848057 TTGGGTATTTTAGTTTGGT
1 TTGGGTATTTTAGTTTGGT
79848076 GGGCCGGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.32, T:0.58
Consensus pattern (19 bp):
TTGGGTATTTTAGTTTGGT
Found at i:79848411 original size:26 final size:26
Alignment explanation
Indices: 79848382--79848437 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
79848372 TGATACAAAT
79848382 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
79848408 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
79848434 TGAT
1 TGAT
79848438 TGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:79851208 original size:8 final size:8
Alignment explanation
Indices: 79851195--79851232 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
79851185 AATTATTTTA
79851195 AAATATAT
1 AAATATAT
79851203 AAATATAT
1 AAATATAT
79851211 AAATATAT
1 AAATATAT
79851219 AAATATAT
1 AAATATAT
*
79851227 CAATAT
1 AAATAT
79851233 TCAAATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (8 bp):
AAATATAT
Found at i:79854116 original size:44 final size:45
Alignment explanation
Indices: 79854045--79854146 Score: 170
Period size: 44 Copynumber: 2.3 Consensus size: 45
79854035 CACAAAAGAA
* *
79854045 TAAAACAAAGTAATATATGAATAATTTCGAAGTGAATAAAACGTTT
1 TAAAACAAA-TAACAAATGAATAATTTCGAAGTGAATAAAACGTTT
79854091 TAAAACAAATAACAAAT-AATAATTTCGAAGTGAATAAAACGTTT
1 TAAAACAAATAACAAATGAATAATTTCGAAGTGAATAAAACGTTT
79854135 TAAAACAAATAA
1 TAAAACAAATAA
79854147 TAAAAGAAAC
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
44 39 0.72
45 6 0.11
46 9 0.17
ACGTcount: A:0.55, C:0.08, G:0.10, T:0.27
Consensus pattern (45 bp):
TAAAACAAATAACAAATGAATAATTTCGAAGTGAATAAAACGTTT
Found at i:79854227 original size:20 final size:22
Alignment explanation
Indices: 79854204--79854250 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
79854194 TGAATAATGC
79854204 ATAA-GAAC-TTAAAATAAATA
1 ATAAGGAACTTTAAAATAAATA
*
79854224 ATAAAAGGAGCTTTAAAATAAATA
1 AT--AAGGAACTTTAAAATAAATA
79854248 ATA
1 ATA
79854251 TATAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.09
22 3 0.14
23 3 0.14
24 14 0.64
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.26
Consensus pattern (22 bp):
ATAAGGAACTTTAAAATAAATA
Found at i:79856215 original size:45 final size:43
Alignment explanation
Indices: 79856146--79856258 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 43
79856136 TTTAATCTAT
* **
79856146 TCCACTGCAACTTCAGGGAAATAAGATCCTATGT-CTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA--CT-TGTACTTCAACCTGC
*
79856191 TCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGT-ACTTCAACCTGC
* *
79856235 TCCATTGCAACTTCAAGGAGATAA
1 TCCACTGCAACTTCAGGGAGATAA
79856259 TGTATCACCC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 3 0.05
43 2 0.03
44 30 0.51
45 24 0.41
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTACTTCAACCTGC
Found at i:79857624 original size:46 final size:47
Alignment explanation
Indices: 79857518--79857639 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 47
79857508 TGTCTTCGAC
** * *
79857518 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
*
79857568 ATAGG-CTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 AT-GGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
79857614 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
79857640 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
45 2 0.03
46 32 0.50
50 28 0.44
51 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:79858030 original size:16 final size:16
Alignment explanation
Indices: 79858009--79858043 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
79857999 GCCCCTAAAT
79858009 TTTCACATATTTGCAC
1 TTTCACATATTTGCAC
79858025 TTTCACATATTTGCAC
1 TTTCACATATTTGCAC
79858041 TTT
1 TTT
79858044 TGCCTCAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.49
Consensus pattern (16 bp):
TTTCACATATTTGCAC
Found at i:79858982 original size:44 final size:45
Alignment explanation
Indices: 79858883--79859000 Score: 132
Period size: 44 Copynumber: 2.6 Consensus size: 45
79858873 TGGCTTTGAT
* * **
79858883 CTGCTTCACTGCAACTTCAGGGAGATAAGATCCGTTATCTTCAGT
1 CTGCTCCACTACAACTTCAGGGAGATAAGATCCGTTATCTTCAAC
* * *
79858928 TTGCTCCACTACAATTTCAGGGAGATAAGA-CTTGTTA-CTTCAAC
1 CTGCTCCACTACAACTTCAGGGAGATAAGATC-CGTTATCTTCAAC
* *
79858972 CTGCTCCACTATAACTTCAGAGAGATAAG
1 CTGCTCCACTACAACTTCAGGGAGATAAG
79859001 GTTTGTTTTG
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 31 0.51
45 30 0.49
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (45 bp):
CTGCTCCACTACAACTTCAGGGAGATAAGATCCGTTATCTTCAAC
Found at i:79859110 original size:122 final size:122
Alignment explanation
Indices: 79858891--79859128 Score: 300
Period size: 122 Copynumber: 2.0 Consensus size: 122
79858881 ATCTGCTTCA
** * * *
79858891 CTGCAACTTCAGGGAGATAAGATCCGTTATCTTCAGTTTGCTCCACTACAATTTCAGGGAGATAA
1 CTGCAACTTCAAAGAGATAAGATCAGCTATCTTCAGTCTGCTCCACTACAATTTCAGGGAGATAA
* * * *
79858956 GACTTGTTACTTCAACCTGCTCCACTATAACTTCA-GAGAGATAAGGTTTGTTTTGAT
66 GACATGTGACTTCAACCTACTCCACTACAACTTCAGGA-AGATAAGGTTTGTTTTGAT
* * * *
79859013 CTGCAACTTCAAAGAGATAAGATCAGCTGTCTTCAGTCTGCTCCTCTGCAACTTT-AGGTAGATA
1 CTGCAACTTCAAAGAGATAAGATCAGCTATCTTCAGTCTGCTCCACTACAA-TTTCAGGGAGATA
* * *
79859077 AGACATGTGGCTTTAACCTACTCCACTGCAACTTCAGGAAGATAAGGTTTGT
65 AGACATGTGACTTCAACCTACTCCACTACAACTTCAGGAAGATAAGGTTTGT
79859129 GATTTGTAGC
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
122 93 0.95
123 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (122 bp):
CTGCAACTTCAAAGAGATAAGATCAGCTATCTTCAGTCTGCTCCACTACAATTTCAGGGAGATAA
GACATGTGACTTCAACCTACTCCACTACAACTTCAGGAAGATAAGGTTTGTTTTGAT
Found at i:79867654 original size:27 final size:26
Alignment explanation
Indices: 79867624--79867800 Score: 149
Period size: 27 Copynumber: 6.5 Consensus size: 26
79867614 AAATTGTTCA
* *
79867624 GCACTAAGTGTGCGATTCGACTTTGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
79867651 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
79867678 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
* *
79867705 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
79867733 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
79867760 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
79867787 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
79867801 GGCTCAATAT
Statistics
Matches: 124, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:79867747 original size:82 final size:81
Alignment explanation
Indices: 79867624--79867779 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
79867614 AAATTGTTCA
* * * * *
79867624 GCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
79867688 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
79867705 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
79867770 TGCGAGTTGA
65 TGCGAATTGA
79867780 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 18 0.28
82 46 0.72
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:79867791 original size:82 final size:81
Alignment explanation
Indices: 79867622--79867800 Score: 198
Period size: 82 Copynumber: 2.2 Consensus size: 81
79867612 TTAAATTGTT
* * * * *
79867622 CAGCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGT
1 CAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGT
*
79867687 GTGCGAATTGACCATG
66 GTGCGAATTGACCATA
* ** *
79867703 CGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAA
1 CAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAA
* **
79867767 GTGTGCGAGTTGATTATA
64 GTGTGCGAATTGACCATA
* *
79867785 TAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCG
79867801 GGCTCAATAT
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 19 0.24
82 61 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
CAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGT
GTGCGAATTGACCATA
Found at i:79872091 original size:20 final size:20
Alignment explanation
Indices: 79872066--79872107 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
79872056 CTCTCAAAGC
79872066 AAACAACGACTTTCTACTCA
1 AAACAACGACTTTCTACTCA
**
79872086 AAACAATTACTTTCTACTCA
1 AAACAACGACTTTCTACTCA
79872106 AA
1 AA
79872108 GCATCGGCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.29
Consensus pattern (20 bp):
AAACAACGACTTTCTACTCA
Found at i:79874876 original size:27 final size:27
Alignment explanation
Indices: 79874845--79875022 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
79874835 TGAATTGTAC
79874845 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
79874872 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
79874898 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
79874926 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
79874954 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
79874981 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
79875008 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79875023 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:79874959 original size:82 final size:81
Alignment explanation
Indices: 79874846--79875001 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
79874836 GAATTGTACA
* *
79874846 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
79874910 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
79874927 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
79874992 TGCGAGTTGA
65 TGCGAATTGA
79875002 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:79875013 original size:82 final size:81
Alignment explanation
Indices: 79874842--79875022 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
79874832 GATTGAATTG
* *
79874842 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
79874907 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
79874923 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
79874987 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
79875005 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
79875023 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:79882198 original size:13 final size:13
Alignment explanation
Indices: 79882180--79882204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79882170 TAATGGTATA
79882180 TTGAATCCATGAC
1 TTGAATCCATGAC
79882193 TTGAATCCATGA
1 TTGAATCCATGA
79882205 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:79882787 original size:27 final size:27
Alignment explanation
Indices: 79882752--79882930 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
79882742 TTAAATTGTA
*
79882752 TAGCACTAAGTGTACGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
79882779 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
79882806 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
79882833 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
79882861 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
79882888 TAGCACTAAGTGTGCGAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
79882915 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
79882931 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 105 0.82
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:79882867 original size:82 final size:81
Alignment explanation
Indices: 79882754--79882904 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
79882744 AAATTGTATA
* *
79882754 GCACTAAGTGTACGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTACGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
79882818 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
79882835 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTACGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
79882900 TGCGA
65 TGCGA
79882905 GATGATTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 14 0.23
82 46 0.75
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTACGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:79882921 original size:82 final size:81
Alignment explanation
Indices: 79882750--79882930 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
79882740 GATTAAATTG
* * *
79882750 TATAGCACTAAGTGTACGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
79882815 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
79882831 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
79882895 AAGTGTGCGAGA-TGATTA
64 AAGTGTGCGA-ATTGACCA
*
79882913 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
79882931 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
81 16 0.20
82 64 0.79
83 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:79884057 original size:57 final size:57
Alignment explanation
Indices: 79883969--79884078 Score: 193
Period size: 57 Copynumber: 1.9 Consensus size: 57
79883959 AGCCCCGTGC
79883969 AGGGAGATATCCAAGTCATAATGGGCAAAGGTCAGTGTAGTCGATCCCTGCAAGTGT
1 AGGGAGATATCCAAGTCATAATGGGCAAAGGTCAGTGTAGTCGATCCCTGCAAGTGT
* **
79884026 AGGGAGATATCGAAGTTGTAATGGGCAAAGGTCAGTGTAGTCGATCCCTGCAA
1 AGGGAGATATCCAAGTCATAATGGGCAAAGGTCAGTGTAGTCGATCCCTGCAA
79884079 CATGGGAGAC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (57 bp):
AGGGAGATATCCAAGTCATAATGGGCAAAGGTCAGTGTAGTCGATCCCTGCAAGTGT
Found at i:79890161 original size:13 final size:13
Alignment explanation
Indices: 79890143--79890167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79890133 TAATGGTATA
79890143 TTGAATCCATGAC
1 TTGAATCCATGAC
79890156 TTGAATCCATGA
1 TTGAATCCATGA
79890168 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:79892768 original size:21 final size:20
Alignment explanation
Indices: 79892730--79892772 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
79892720 TTACCCCAAG
*
79892730 GAAGCCGATTGATCCATCTCA
1 GAAGCCGATTCATCCATC-CA
79892751 GAAGCCGGATTCAT-CATCCA
1 GAAGCC-GATTCATCCATCCA
79892771 GA
1 GA
79892773 CTGAAAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (20 bp):
GAAGCCGATTCATCCATCCA
Done.