Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 74 of 182
Found at i:23424548 original size:12 final size:12
Alignment explanation
Indices: 23424510--23424551 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
23424500 GGAAAATAAA
*
23424510 AGAGAGGGAAAG
1 AGAGAGGGAGAG
*
23424522 AGAGAGAGAGAG
1 AGAGAGGGAGAG
*
23424534 AGAGAGGGAGGG
1 AGAGAGGGAGAG
23424546 AGAGAG
1 AGAGAG
23424552 CGCTAAGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (12 bp):
AGAGAGGGAGAG
Found at i:23427995 original size:91 final size:92
Alignment explanation
Indices: 23427881--23428066 Score: 236
Period size: 91 Copynumber: 2.0 Consensus size: 92
23427871 TTAATATCAG
* ** *
23427881 GTACTATAATAAAATATATATTGATTGTTTA-GATATCACATTAAACATTTTCAAAGTA-CAAAT
1 GTACCATAATAAAATATATATTGATAATTTATG-TACCACATTAAACATTTTCAAAGTATC-AAT
* *
23427944 ACTACATTAAATATTTTATGAAA-GTACAA
64 ACCACATTAAATATTTCA-GAAACGTACAA
* *
23427973 GTACCATAATAAAA-ATATATTGATAATTTATGTACCACATTAGACATTTTTAAAGTATCAATAC
1 GTACCATAATAAAATATATATTGATAATTTATGTACCACATTAAACATTTTCAAAGTATCAATAC
*
23428037 CACATTAGATATTTCAGAAACGTACAA
66 CACATTAAATATTTCAGAAACGTACAA
23428064 GTA
1 GTA
23428067 GTGAATGTCT
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
90 4 0.05
91 63 0.77
92 15 0.18
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.35
Consensus pattern (92 bp):
GTACCATAATAAAATATATATTGATAATTTATGTACCACATTAAACATTTTCAAAGTATCAATAC
CACATTAAATATTTCAGAAACGTACAA
Found at i:23439633 original size:40 final size:40
Alignment explanation
Indices: 23439322--23439640 Score: 344
Period size: 40 Copynumber: 8.1 Consensus size: 40
23439312 GAGTATTAAT
* **
23439322 ACCGGCTCATAGCCTGCTAAACCGTAGCTTGTAA-AATATC
1 ACCGGCTCATAGCCTGCTAAGCCGTAGCTTG-AACTTTATC
* * * *
23439362 ACCAGCTCATGGCCTGCTAGGCCGTAGCTTGAA-TGCTATC
1 ACCGGCTCATAGCCTGCTAAGCCGTAGCTTGAACT-TTATC
* * *
23439402 ACCGGCTCATGGCCTACTAAGCCGTAGCTT-AAATTCTATC
1 ACCGGCTCATAGCCTGCTAAGCCGTAGCTTGAACTT-TATC
* * * *
23439442 ACCGGCTCATGGCCTGCTAAGCCATAACTTGAACTTTATG
1 ACCGGCTCATAGCCTGCTAAGCCGTAGCTTGAACTTTATC
* * *
23439482 ATCGGCTGATAGCTTGCTAAGCCGTAGCTTGAACTTTATC
1 ACCGGCTCATAGCCTGCTAAGCCGTAGCTTGAACTTTATC
* *
23439522 ACCAGCTCTTAGCCTGCTAAGCCGTAGCTTGAACTTTATC
1 ACCGGCTCATAGCCTGCTAAGCCGTAGCTTGAACTTTATC
* * *
23439562 A-CTG-AC-TAGCCTGCTAAGCTGTAGCTTGAACTTTATC
1 ACCGGCTCATAGCCTGCTAAGCCGTAGCTTGAACTTTATC
* * *
23439599 ATCTGCTCATAGCCTGCTAAGCCGTAGCGTGAACTTTATC
1 ACCGGCTCATAGCCTGCTAAGCCGTAGCTTGAACTTTATC
23439639 AC
1 AC
23439641 ACGTAACATA
Statistics
Matches: 238, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
37 31 0.13
38 4 0.02
39 7 0.03
40 192 0.81
41 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
ACCGGCTCATAGCCTGCTAAGCCGTAGCTTGAACTTTATC
Found at i:23456948 original size:11 final size:11
Alignment explanation
Indices: 23456932--23456961 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
23456922 TTTAAAACTT
23456932 GTAATTTTGGG
1 GTAATTTTGGG
23456943 GTAATTTTGGG
1 GTAATTTTGGG
*
23456954 ATAATTTT
1 GTAATTTT
23456962 TAGCACTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (11 bp):
GTAATTTTGGG
Found at i:23462443 original size:51 final size:51
Alignment explanation
Indices: 23462341--23462518 Score: 241
Period size: 51 Copynumber: 3.5 Consensus size: 51
23462331 TTTCATTTAA
* ** * * *
23462341 TACTCACGATGACA-TATTGTCATTGGACCATTTAATTCGTCATGGATTCATT
1 TACTCACGATGACACT-TAGTCATCAGACC-TTTAATCCGTAAAGGATTCATT
*
23462393 TACTCACGATAACACTTAGTCATCAGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCAGACCTTTAATCCGTAAAGGATTCATT
*
23462444 TACTCACGATGACACTTAGTCATCTGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCAGACCTTTAATCCGTAAAGGATTCATT
* *
23462495 TACTGATGATGACACTTAGTCATC
1 TACTCACGATGACACTTAGTCATC
23462519 GGATTCTTTC
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
51 90 0.79
52 23 0.20
53 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCAGACCTTTAATCCGTAAAGGATTCATT
Found at i:23469170 original size:51 final size:51
Alignment explanation
Indices: 23469069--23469408 Score: 484
Period size: 51 Copynumber: 6.6 Consensus size: 51
23469059 TTTCGTTTAA
* * * *
23469069 TACTCACGATGACA-TATTGTCATCGGACCATTTAATTCGTCATGGATTCATT
1 TACTCACGATGACACT-TAGTCATCGGACC-TTTAATCCGTAAAGGATTCATT
* *
23469121 TACTCACGATGACACTTAGTAATCAGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
23469172 TACTCACAATGACACTTAGTTATCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
23469223 TACTCACGATGACACTTAGTCATCAGACCTTTAATCCATAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * * *
23469274 TACTAATGATGACACTTAGTCATCGGACGTTTAATCTGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * *
23469325 TACTCACGATGACACTCAGTCATCGGACGTTTAATCTGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
23469376 TACTCACGATGACACTCAGTCATCGGACTCTTT
1 TACTCACGATGACACTTAGTCATCGGAC-CTTT
23469409 CGTTTATAGC
Statistics
Matches: 263, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
51 235 0.89
52 27 0.10
53 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
Found at i:23473801 original size:48 final size:48
Alignment explanation
Indices: 23473745--23473840 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
23473735 ACAAAGACTA
23473745 TTTATCTTTCGACCTCACAGTCCAAATCAATTCGGGTTTAAGATGTTC
1 TTTATCTTTCGACCTCACAGTCCAAATCAATTCGGGTTTAAGATGTTC
* *
23473793 TTTATCTTTCGACCTCACAGTCCAAATCAGTTCGGGTTTAAGGTGTTC
1 TTTATCTTTCGACCTCACAGTCCAAATCAATTCGGGTTTAAGATGTTC
23473841 ACGAATAGGC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (48 bp):
TTTATCTTTCGACCTCACAGTCCAAATCAATTCGGGTTTAAGATGTTC
Found at i:23474198 original size:23 final size:23
Alignment explanation
Indices: 23474172--23474216 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
23474162 AAAAGAACGA
23474172 AAATAAAGT-AACTAAAACCTAAG
1 AAATAAA-TAAACTAAAACCTAAG
23474195 AAATAAATAAACTAAAACCTAA
1 AAATAAATAAACTAAAACCTAA
23474217 ATTTAAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.64, C:0.13, G:0.04, T:0.18
Consensus pattern (23 bp):
AAATAAATAAACTAAAACCTAAG
Found at i:23487837 original size:19 final size:18
Alignment explanation
Indices: 23487813--23487849 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
23487803 ATCTTTATTG
23487813 TCATTGCATTTTTATTTTA
1 TCATTGCATTTTT-TTTTA
*
23487832 TCATTGTATTTTTTTTTA
1 TCATTGCATTTTTTTTTA
23487850 ATTTAGTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.19, C:0.08, G:0.05, T:0.68
Consensus pattern (18 bp):
TCATTGCATTTTTTTTTA
Found at i:23488459 original size:26 final size:26
Alignment explanation
Indices: 23488423--23488491 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
23488413 TAGTCACTTA
*
23488423 AAAAGAAAAAATGAGAAGAA-AG-AAAG
1 AAAAGAGAAAA-GAGAA-AAGAGAAAAG
23488449 AAAAGAGAAAAGAGAAAAGAGAAAAG
1 AAAAGAGAAAAGAGAAAAGAGAAAAG
*
23488475 AAAAAAGAAAA-AGAAAA
1 AAAAGAGAAAAGAGAAAA
23488492 AAATTATGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
24 2 0.05
25 13 0.33
26 24 0.62
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (26 bp):
AAAAGAGAAAAGAGAAAAGAGAAAAG
Found at i:23488476 original size:12 final size:13
Alignment explanation
Indices: 23488423--23488491 Score: 72
Period size: 13 Copynumber: 5.3 Consensus size: 13
23488413 TAGTCACTTA
23488423 AAAAGA-AAAAATG
1 AAAAGAGAAAAA-G
*
23488436 AGAAGA-AAGAAAG
1 AAAAGAGAA-AAAG
23488449 AAAAGAGAAAAGAG
1 AAAAGAGAAAA-AG
23488463 AAAAGAG-AAAAG
1 AAAAGAGAAAAAG
*
23488475 AAAAAAGAAAAAG
1 AAAAGAGAAAAAG
23488488 AAAA
1 AAAA
23488492 AAATTATGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
12 8 0.16
13 27 0.55
14 14 0.29
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (13 bp):
AAAAGAGAAAAAG
Found at i:23488492 original size:7 final size:7
Alignment explanation
Indices: 23488422--23488493 Score: 65
Period size: 7 Copynumber: 9.7 Consensus size: 7
23488412 TTAGTCACTT
23488422 AAAAAGA
1 AAAAAGA
23488429 AAAAATGA
1 AAAAA-GA
23488437 GAAGAAAGAA
1 -AA-AAAG-A
23488447 AGAAAAGA
1 A-AAAAGA
*
23488455 GAAAAGA
1 AAAAAGA
*
23488462 GAAAAGA
1 AAAAAGA
*
23488469 GAAAAGA
1 AAAAAGA
23488476 AAAAAG-
1 AAAAAGA
23488482 AAAAAGA
1 AAAAAGA
23488489 AAAAA
1 AAAAA
23488494 ATTATGTTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
6 6 0.11
7 35 0.61
8 3 0.05
9 8 0.14
10 5 0.09
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (7 bp):
AAAAAGA
Found at i:23493125 original size:20 final size:21
Alignment explanation
Indices: 23493092--23493130 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
23493082 TGTAGTTGCA
23493092 TTTATTGTTTCTTTTCTAACT
1 TTTATTGTTTCTTTTCTAACT
23493113 TTTATTG-TTCTTTTCTAA
1 TTTATTGTTTCTTTTCTAA
23493131 TGTTTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTATTGTTTCTTTTCTAACT
Found at i:23505497 original size:14 final size:15
Alignment explanation
Indices: 23505478--23505512 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
23505468 CAAAACTAAT
*
23505478 ATTTTTACAA-TTTC
1 ATTTTTACAACATTC
23505492 ATTTTTACAACATTC
1 ATTTTTACAACATTC
23505507 ATTTTT
1 ATTTTT
23505513 TTTAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTACAACATTC
Found at i:23509731 original size:20 final size:20
Alignment explanation
Indices: 23509697--23509738 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23509687 AATTTTTTAA
* *
23509697 ATAATATTACTTGAATAGTT
1 ATAATATTACATGAATAATT
*
23509717 ATAATATTAGATGAATAATT
1 ATAATATTACATGAATAATT
23509737 AT
1 AT
23509739 GTGTCATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (20 bp):
ATAATATTACATGAATAATT
Found at i:23514214 original size:28 final size:28
Alignment explanation
Indices: 23514156--23514230 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
23514146 ATTTAGTTGT
* * * *
23514156 AAATAAAAGTAAACAAAAAGACAACATA
1 AAATAAAAATAAACAAAAACACAAAAGA
23514184 AAATAAAAATAAACAAAAACA-AAAAGGA
1 AAATAAAAATAAACAAAAACACAAAA-GA
*
23514212 AAAGAAAAAATAAA-AAAAA
1 AAA-TAAAAATAAACAAAAA
23514231 TTGACTTGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 3 0.08
28 28 0.70
29 9 0.22
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.08
Consensus pattern (28 bp):
AAATAAAAATAAACAAAAACACAAAAGA
Found at i:23523558 original size:28 final size:28
Alignment explanation
Indices: 23523526--23523583 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
23523516 GTGTTCGAGA
23523526 TAGTTCGATTACACGGGGTACCAGCCTC
1 TAGTTCGATTACACGGGGTACCAGCCTC
23523554 TAGTTCGATTACACGGGGTACCAGCCTC
1 TAGTTCGATTACACGGGGTACCAGCCTC
23523582 TA
1 TA
23523584 TCATCTCCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (28 bp):
TAGTTCGATTACACGGGGTACCAGCCTC
Found at i:23529089 original size:26 final size:26
Alignment explanation
Indices: 23529060--23529116 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
23529050 TGTTGAACAT
* **
23529060 AATTAAAATATATTAATTTATTTAAA
1 AATTAAAATATAATAATGAATTTAAA
* *
23529086 AATTCAAATATAATAATGAATTTTAA
1 AATTAAAATATAATAATGAATTTAAA
23529112 AATTA
1 AATTA
23529117 TAATTAAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
AATTAAAATATAATAATGAATTTAAA
Found at i:23531785 original size:22 final size:22
Alignment explanation
Indices: 23531731--23531785 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
23531721 AAAATTTAAT
* *
23531731 TTTTTATTTATTATTATATAAA
1 TTTTTATTTAATATAATATAAA
*
23531753 TTCTTACTTTAATATAAT-TAAAA
1 TTTTTA-TTTAATATAATAT-AAA
23531776 TTTTTATTTA
1 TTTTTATTTA
23531786 TAAAGGTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTATTTAATATAATATAAA
Found at i:23532185 original size:21 final size:23
Alignment explanation
Indices: 23532127--23532189 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
23532117 AAGGGTTTGA
* *
23532127 AATTAAATTATAATTTTTACGAT
1 AATTAAATTATAATTTTTACAAG
* *
23532150 AATAAAAATATAATTTTTA-AAG
1 AATTAAATTATAATTTTTACAAG
23532172 AATTAAATTA-AATTTTTA
1 AATTAAATTATAATTTTTA
23532190 TCATTTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 8 0.24
22 9 0.26
23 17 0.50
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (23 bp):
AATTAAATTATAATTTTTACAAG
Found at i:23549136 original size:29 final size:30
Alignment explanation
Indices: 23549064--23549147 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 30
23549054 TTATAATTTT
* ** *
23549064 GTCATTGAATTATTAAGAAATTTTCATTTAA
1 GTCATTGAACTATTAAG-TTTTTTTATTTAA
*
23549095 GTCATTGAACTATTCA-TTTTTTTATTTAA
1 GTCATTGAACTATTAAGTTTTTTTATTTAA
*
23549124 GTCATT-AGGCTATTAAGTTTTTTT
1 GTCATTGA-ACTATTAAGTTTTTTT
23549148 TAAATGTTCT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.02
29 22 0.50
30 7 0.16
31 14 0.32
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (30 bp):
GTCATTGAACTATTAAGTTTTTTTATTTAA
Found at i:23550542 original size:31 final size:32
Alignment explanation
Indices: 23550474--23550545 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 32
23550464 GAAATATATG
23550474 TATATATATATTAGTTTTAATATTTAATAATTA
1 TATATATATATTA-TTTTAATATTTAATAATTA
* * *
23550507 TATATATATATT-TTTTCATTTATTAA-AATTT
1 TATATATATATTATTTTAATAT-TTAATAATTA
23550538 TATATATA
1 TATATATA
23550546 AGCCTCTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 19 0.54
32 4 0.11
33 12 0.34
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (32 bp):
TATATATATATTATTTTAATATTTAATAATTA
Found at i:23553418 original size:101 final size:108
Alignment explanation
Indices: 23553280--23553534 Score: 246
Period size: 109 Copynumber: 2.4 Consensus size: 108
23553270 AATCAATCGA
* * * * *
23553280 GAAAAAACATA-TCTAGTAAGTTGGGGCACAACATTCTCGAATCT-TCGAAAAT-AAAT-A-A-C
1 GAAAAATCATACTC-AGTACGTTAGGGCACAA-TTTCTCGAATCTCCCGAAAATAAAATAACATC
*
23553339 -ATTTATCAATTTTAAATAAGATATTTAATTAT-TTAGGTTCAA-G
64 AATTTATCAATTTTAAATAAGATATTTAATTATGTAAGG-TCAACG
*
23553382 GAAAAATCATACTCAGTACGTTAGGGCACAATTTCTCGAAT-TCCCTAAAATAAAATAACATTCA
1 GAAAAATCATACTCAGTACGTTAGGGCACAATTTCTCGAATCTCCCGAAAATAAAATAACA-TC-
* *
23553446 ATATTTATCGATTTTAAATAGGATATTTAATTATGTAAGGTCAACG
64 A-ATTTATCAATTTTAAATAAGATATTTAATTATGTAAGGTCAACG
* * * *
23553492 G-AAAATCATAAC-CAATACGTTAGGGCATAATTTTTTGAATCTC
1 GAAAAATCAT-ACTCAGTACGTTAGGGCACAATTTCTCGAATCTC
23553535 TTAAATAAAA
Statistics
Matches: 126, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
100 1 0.01
101 15 0.12
102 29 0.23
103 3 0.02
104 1 0.01
106 1 0.01
109 66 0.52
110 10 0.08
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (108 bp):
GAAAAATCATACTCAGTACGTTAGGGCACAATTTCTCGAATCTCCCGAAAATAAAATAACATCAA
TTTATCAATTTTAAATAAGATATTTAATTATGTAAGGTCAACG
Found at i:23553471 original size:109 final size:108
Alignment explanation
Indices: 23553339--23553551 Score: 279
Period size: 109 Copynumber: 2.0 Consensus size: 108
23553329 AATAAATAAC
* *
23553339 ATTTATCAATTTTAAATAAGATATTTAATTAT-TTAGGTTCAA-GGAAAAATCAT-ACTCAGTAC
1 ATTTATCAATTTTAAATAAGATATTTAATTATGTAAGG-TCAACGG-AAAATCATAAC-CAATAC
*
23553401 GTTAGGGCACAATTTCTCGAATTCCCTAAAATAAAATAACATTCAAT
63 GTTAGGGCACAATTTCTCGAA-TCCCTAAAATAAAAGAACATTCAAT
* *
23553448 ATTTATCGATTTTAAATAGGATATTTAATTATGTAAGGTCAACGGAAAATCATAACCAATACGTT
1 ATTTATCAATTTTAAATAAGATATTTAATTATGTAAGGTCAACGGAAAATCATAACCAATACGTT
* * * * *
23553513 AGGGCATAATTTTTTGAATCTCTTAAATAAAAGAACATT
66 AGGGCACAATTTCTCGAATCCCTAAAATAAAAGAACATT
23553552 ACCTTTTTTC
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
108 18 0.20
109 65 0.71
110 8 0.09
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (108 bp):
ATTTATCAATTTTAAATAAGATATTTAATTATGTAAGGTCAACGGAAAATCATAACCAATACGTT
AGGGCACAATTTCTCGAATCCCTAAAATAAAAGAACATTCAAT
Found at i:23555392 original size:18 final size:18
Alignment explanation
Indices: 23555353--23555408 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
23555343 GGTGTTAGGC
*
23555353 TTGTAAGTTGGG-TTTGG
1 TTGTAATTTGGGTTTTGG
*
23555370 GTGTAATTTGGGTTTTGG
1 TTGTAATTTGGGTTTTGG
23555388 TTGTAATTTGGGTTTTGG
1 TTGTAATTTGGGTTTTGG
23555406 TTG
1 TTG
23555409 GTTTAGTCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
17 10 0.29
18 25 0.71
ACGTcount: A:0.11, C:0.00, G:0.38, T:0.52
Consensus pattern (18 bp):
TTGTAATTTGGGTTTTGG
Found at i:23555778 original size:20 final size:20
Alignment explanation
Indices: 23555741--23555779 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23555731 TATCTTTAGA
* *
23555741 GTATAAGATTCGCTTTTGCG
1 GTATAAGATTCACCTTTGCG
23555761 GTATAAGATTCACCTTTGC
1 GTATAAGATTCACCTTTGC
23555780 AGCTTCAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (20 bp):
GTATAAGATTCACCTTTGCG
Found at i:23555786 original size:69 final size:70
Alignment explanation
Indices: 23555691--23555830 Score: 176
Period size: 69 Copynumber: 2.0 Consensus size: 70
23555681 TCATCTTTAG
* ** * *
23555691 GGTATAAGATTCTCCTTAGTTGCTTCAATCAGCCCTTCTTTATCT-TTA-GAGTATAAGATTCGC
1 GGTATAAGATTCACCTTAGCAGCTTCAATCAGCCCCTCTATATCTCTTATG-GTATAAGATTCGC
*
23555754 TTTTGC
65 TGTTGC
* * *
23555760 GGTATAAGATTCACCTTTGCAGCTTCAATCGGCCCCTCTATGTCTCTTATGGTATAAGATTCGCT
1 GGTATAAGATTCACCTTAGCAGCTTCAATCAGCCCCTCTATATCTCTTATGGTATAAGATTCGCT
23555825 GTTGC
66 GTTGC
23555830 G
1 G
23555831 ACTTTAATCT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
69 37 0.62
70 22 0.37
71 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.39
Consensus pattern (70 bp):
GGTATAAGATTCACCTTAGCAGCTTCAATCAGCCCCTCTATATCTCTTATGGTATAAGATTCGCT
GTTGC
Found at i:23555871 original size:49 final size:49
Alignment explanation
Indices: 23555810--23556158 Score: 375
Period size: 49 Copynumber: 7.1 Consensus size: 49
23555800 TGTCTCTTAT
* *
23555810 GGTATAAGATTCGCTGTTGCGACTTTAATCTTTCCCTCCACATCTTTAG
1 GGTATAAGATTCGCTGTTGCGACTTCAATCTTTCCCTCCACATCTCTAG
* *
23555859 GGTATAAGATTCG-TCATTGC-AGCTTCAGTCTTTCCCTCCACATCTCTAG
1 GGTATAAGATTCGCT-GTTGCGA-CTTCAATCTTTCCCTCCACATCTCTAG
* * * * *
23555908 GGTATAAGATTCG-TCGTTGCGGCTTCAATCTTTTCCTTCACATATTTAG
1 GGTATAAGATTCGCT-GTTGCGACTTCAATCTTTCCCTCCACATCTCTAG
* *
23555957 GTTATAAGATTCGCCGTTGCGACTTCAATCTTTCCCTCCACATCTCTAG
1 GGTATAAGATTCGCTGTTGCGACTTCAATCTTTCCCTCCACATCTCTAG
* * * *
23556006 GGTATAAGATTC-ATCGTTGCGACTTTAATCTTTCCCTCCATATTTCTAG
1 GGTATAAGATTCGCT-GTTGCGACTTCAATCTTTCCCTCCACATCTCTAG
* * * ** * * * *
23556055 GGTATAAGATTCACCGTTACGGTTTTAATCATTCCCTCAACATCTCTAA
1 GGTATAAGATTCGCTGTTGCGACTTCAATCTTTCCCTCCACATCTCTAG
* *
23556104 GGTATAAGATTCATCT-TTGCGGCTTCAATCTTTCCCTCCACATCTCTAG
1 GGTATAAGATTC-GCTGTTGCGACTTCAATCTTTCCCTCCACATCTCTAG
23556153 GTGTAT
1 G-GTAT
23556159 TATATTTGCC
Statistics
Matches: 250, Mismatches: 42, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
48 2 0.01
49 243 0.97
50 5 0.02
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (49 bp):
GGTATAAGATTCGCTGTTGCGACTTCAATCTTTCCCTCCACATCTCTAG
Found at i:23555963 original size:98 final size:97
Alignment explanation
Indices: 23555760--23556234 Score: 425
Period size: 98 Copynumber: 4.8 Consensus size: 97
23555750 TCGCTTTTGC
* * *** * ** * *
23555760 GGTATAAGATTCACCTTTGCAGCTTCAATCGGCCCCTCTATGTCTCTTATGGTATAAGATTC-GC
1 GGTATAAGATTCGCCGTTGC-GCTTCAATCTTTCCCTCCACATCTC-TAGGGTATAAGATTCATC
* *
23555824 TGTTGCGACTTTAATCTTTCCCTCCACATCTTTAG
64 -GTTGCGACTTCAATCTTTCCCTCCACATATTTAG
* * * *
23555859 GGTATAAGATTCGTCATTGCAGCTTCAGTCTTTCCCTCCACATCTCTAGGGTATAAGATTCGTCG
1 GGTATAAGATTCGCCGTTGC-GCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCATCG
* * *
23555924 TTGCGGCTTCAATCTTTTCCTTCACATATTTAG
65 TTGCGACTTCAATCTTTCCCTCCACATATTTAG
*
23555957 GTTATAAGATTCGCCGTTGCGACTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCATCG
1 GGTATAAGATTCGCCGTTGCG-CTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCATCG
* *
23556022 TTGCGACTTTAATCTTTCCCTCCATAT-TTCTAG
65 TTGCGACTTCAATCTTTCCCTCCACATATT-TAG
* * * * * * * *
23556055 GGTATAAGATTCACCGTTACGGTTTTAATCATTCCCTCAACATCTCTAAGGTATAAGATTCATCT
1 GGTATAAGATTCGCCGTTGC-GCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCATCG
* * *
23556120 TTGCGGCTTCAATCTTTCCCTCCACATCTCTAG
65 TTGCGACTTCAATCTTTCCCTCCACATATTTAG
* * * * * * * *
23556153 GTGTATTATATTTGCCCTTGCGTCTTCAATCTATT-CCTCTATAGCTTTAAGGGTATAAGATTCA
1 G-GTATAAGATTCGCCGTTGCG-CTTCAATCT-TTCCCTCCACATCTCT-AGGGTATAAGATTCA
* * * *
23556217 CCCTTACAACTTCAATCT
62 TCGTTGCGACTTCAATCT
23556235 ACCCTTTTAC
Statistics
Matches: 308, Mismatches: 59, Indels: 17
0.80 0.15 0.04
Matches are distributed among these distances:
97 3 0.01
98 209 0.68
99 67 0.22
100 29 0.09
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (97 bp):
GGTATAAGATTCGCCGTTGCGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCATCGT
TGCGACTTCAATCTTTCCCTCCACATATTTAG
Found at i:23555991 original size:147 final size:147
Alignment explanation
Indices: 23555810--23556158 Score: 443
Period size: 147 Copynumber: 2.4 Consensus size: 147
23555800 TGTCTCTTAT
* * * *
23555810 GGTATAAGATTCGCTGTTGCGACTTTAATCTTTCCCTCCACATCTTTAGGGTATAAGATTCGTCA
1 GGTATAAGATTCGCCGTTGCGACTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCATCA
* ** *
23555875 TTGC-AGCTTCAGTCTTTCCCTCCACATCTCTAGGGTATAAGATTCGTCGTTGCGGCTTCAATCT
66 TTGCGA-CTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCACCGTTACGGCTTCAATC-
* * *
23555939 TTTCCTTC-ACATAT-TTA
129 ATTCCCTCAACATATCTAA
23555956 GGTTATAAGATTCGCCGTTGCGACTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCATC
1 GG-TATAAGATTCGCCGTTGCGACTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCATC
* * * * * *
23556021 GTTGCGACTTTAATCTTTCCCTCCATATTTCTAGGGTATAAGATTCACCGTTACGGTTTTAATCA
65 ATTGCGACTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCACCGTTACGGCTTCAATCA
*
23556086 TTCCCTCAACATCTCTAA
130 TTCCCTCAACATATCTAA
** * *
23556104 GGTATAAGATTCATCTTTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGTGTAT
1 GGTATAAGATTCGCCGTTGCGACTTCAATCTTTCCCTCCACATCTCTAGG-GTAT
23556159 TATATTTGCC
Statistics
Matches: 176, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
146 8 0.05
147 159 0.90
148 9 0.05
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (147 bp):
GGTATAAGATTCGCCGTTGCGACTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCATCA
TTGCGACTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGATTCACCGTTACGGCTTCAATCAT
TCCCTCAACATATCTAA
Found at i:23556501 original size:99 final size:98
Alignment explanation
Indices: 23556247--23556837 Score: 450
Period size: 99 Copynumber: 6.0 Consensus size: 98
23556237 CCTTTTACAG
* * * * * * *
23556247 CTTTAGGTGTAT--GATTTGGTATTGTACCTTCACTCCATTTCACTGTAACCTCAGGGACATTGA
1 CTTTAGGAGTATAGGATTTGGTGTAGTAACTTCACTTCATTCCACTGTAACCTCAAGGACATTGA
* * *
23556310 GATCTG-TTACTTGTTTTAATCCG-CTTCACTGTAG
66 GATCTGCTT--TTGTTTTAATCTGAC-TCACTGCAA
* * *
23556344 CTTCAGGAAG-ATAGGA-TT--TG-A--AGCTTCACTCCATTCCACTGTAACCTCAAGGACATTG
1 CTTTAGG-AGTATAGGATTTGGTGTAGTAACTTCACTTCATTCCACTGTAACCTCAAGGACATTG
*
23556402 AGATCTGCTTTTGGCTTTAATCTGACTCACTGCAA
65 AGATCTGCTTTT-GTTTTAATCTGACTCACTGCAA
* *
23556437 CTTTAGGGGTATAGGATTTGGTGCT-GTAACTTCACTTCATTCCACTGTAACCTCAAGTACATTG
1 CTTTAGGAGTATAGGATTTGGTG-TAGTAACTTCACTTCATTCCACTGTAACCTCAAGGACATTG
* * *
23556501 AGATCTG-TTACTTAATTTTAATTTGA-TCCACTACAA
65 AGATCTGCTT--TT-GTTTTAATCTGACT-CACTGCAA
* * * *
23556537 CATTAGG-GATATAGGATTTGGTGTAGTAGCTTCATTTTATTCCACTGTAACCT-AAGAGACATT
1 CTTTAGGAG-TATAGGATTTGGTGTAGTAACTTCACTTCATTCCACTGTAACCTCAAG-GACATT
* *
23556600 GAGATCTGCTACTTGTTTTAAT-TCACTTCACTGCAA
64 GAGATCTGCT-TTTGTTTTAATCTGAC-TCACTGCAA
* * * * * * *
23556636 CTTCAGGAAG-ATAGAATTTGTTGTTG-AAGCTTCACTCCATTTCACTATAACCTCAAGGACATT
1 CTTTAGG-AGTATAGGATTTGGTGTAGTAA-CTTCACTTCATTCCACTGTAACCTCAAGGACATT
* * *
23556699 GAGATCTGCTTCTGGCTTTAATCTGACCCACTGCAA
64 GAGATCTGCTT-TTGTTTTAATCTGACTCACTGCAA
* * * * ** * *
23556735 CTTCAAGAGTATAGGATTTGTTGTAGTAGCTT-TGTTCCATTCCACTATAACCTCAGGGACATTG
1 CTTTAGGAGTATAGGATTTGGTGTAGTAACTTCACTT-CATTCCACTGTAACCTCAAGGACATTG
* *
23556799 AGATCTGCTACTTGTTTTAATC-CACTACACTGCAA
65 AGATCTGCT-TTTGTTTTAATCTGACT-CACTGCAA
23556834 CTTT
1 CTTT
23556838 GTTGAAGCTT
Statistics
Matches: 398, Mismatches: 61, Indels: 68
0.76 0.12 0.13
Matches are distributed among these distances:
92 3 0.01
93 69 0.17
94 5 0.01
96 3 0.01
97 8 0.02
98 13 0.03
99 209 0.53
100 86 0.22
101 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (98 bp):
CTTTAGGAGTATAGGATTTGGTGTAGTAACTTCACTTCATTCCACTGTAACCTCAAGGACATTGA
GATCTGCTTTTGTTTTAATCTGACTCACTGCAA
Found at i:23556789 original size:298 final size:291
Alignment explanation
Indices: 23556287--23556819 Score: 755
Period size: 298 Copynumber: 1.8 Consensus size: 291
23556277 CACTCCATTT
* * * * * *
23556287 CACTGTAACCTCAGGGACATTGAGATCTGTTACTTGTTTTAATCCGCTTCACTGTAGCTTCAGGA
1 CACTGTAACCTAAGAGACATTGAGATCTGCTACTTGTTTTAATCCACTTCACTGCAACTTCAGGA
* *
23556352 AGATAGGATTTGAAGCTTCACTCCATTCCACTGTAACCTCAAGGACATTGAGATCTGCTTTTGGC
66 AGATAGGATTTGAAGCTTCACTCCATTCCACTATAACCTCAAGGACATTGAGATCTGCTTCTGGC
* * * *
23556417 TTTAATCTGACTCACTGCAACTTTAGGGGTATAGGATTTGGTGCTGTAACTTCACTTCATTCCAC
131 TTTAATCTGACCCACTGCAACTTCAAGAGTATAGGATTTGGTGCTGTAACTTCACTTCATTCCAC
* * *
23556482 TGTAACCTCAAGTACATTGAGATCTGTTACTTAATTTTAATTTGATCCACTACAACATTAGGGAT
196 TATAACCTCAAGGACATTGAGATCTGCTACTT-ATTTTAATTTGATCCACTACAACATTAGGGAT
23556547 ATAGGATTTGGTGTAGTAGCTTCATTTTATTC
260 ATAGGATTTGGTGTAGTAGCTTCATTTTATTC
*
23556579 CACTGTAACCTAAGAGACATTGAGATCTGCTACTTGTTTTAATTCACTTCACTGCAACTTCAGGA
1 CACTGTAACCTAAGAGACATTGAGATCTGCTACTTGTTTTAATCCACTTCACTGCAACTTCAGGA
* *
23556644 AGATAGAATTTGTTGTTGAAGCTTCACTCCATTTCACTATAACCTCAAGGACATTGAGATCTGCT
66 AGATAG-----GAT-TTGAAGCTTCACTCCATTCCACTATAACCTCAAGGACATTGAGATCTGCT
* * **
23556709 TCTGGCTTTAATCTGACCCACTGCAACTTCAAGAGTATAGGATTTGTTG-TAGTAGCTT-TGTTC
125 TCTGGCTTTAATCTGACCCACTGCAACTTCAAGAGTATAGGATTTGGTGCT-GTAACTTCACTT-
* *
23556772 CATTCCACTATAACCTCAGGGACATTGAGATCTGCTACTTGTTTTAAT
188 CATTCCACTATAACCTCAAGGACATTGAGATCTGCTACTTATTTTAAT
23556820 CCACTACACT
Statistics
Matches: 209, Mismatches: 24, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
292 64 0.31
297 12 0.06
298 133 0.64
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (291 bp):
CACTGTAACCTAAGAGACATTGAGATCTGCTACTTGTTTTAATCCACTTCACTGCAACTTCAGGA
AGATAGGATTTGAAGCTTCACTCCATTCCACTATAACCTCAAGGACATTGAGATCTGCTTCTGGC
TTTAATCTGACCCACTGCAACTTCAAGAGTATAGGATTTGGTGCTGTAACTTCACTTCATTCCAC
TATAACCTCAAGGACATTGAGATCTGCTACTTATTTTAATTTGATCCACTACAACATTAGGGATA
TAGGATTTGGTGTAGTAGCTTCATTTTATTC
Found at i:23556808 original size:198 final size:198
Alignment explanation
Indices: 23556260--23556836 Score: 590
Period size: 199 Copynumber: 2.9 Consensus size: 198
23556250 TAGGTGTATG
** * * *
23556260 ATTTGGTATTGTACCTTCACTCCATTTCACTGTAACCTCAGGGACATTGAGATCTGTTACTTGTT
1 ATTTGGTGCTGTAACTTCACTCCATTTCACTGTAACCTCAAGGACATTGAGATCTGTTACTAGTT
* * * * * *
23556325 TTAATCCG-CTTCACTGTAGCTTCAGGAAG-ATAGGA--T-TTG-A--AGCTTCACTCCATTCCA
66 TTAATCTGAC-CCACTGCAACTTCAAG-AGTATAGGATTTGTTGTAGTAGCTTCATTCCATTCCA
* * * * * *
23556382 CTGTAACCTCAAGGACATTGAGATCTGCT-TTTGGCTTTAATCTGAC-TCACTGCAACTTTAGGG
129 CTGTAACCTCAGGGACATTGAGATCTGCTACTT-GTTTTAAT-TCACTTCACTGCAACTTCAGGA
*
23556445 GTATAGG
192 GTATAGA
* * * *
23556452 ATTTGGTGCTGTAACTTCACTTCATTCCACTGTAACCTCAAGTACATTGAGATCTGTTACTTAAT
1 ATTTGGTGCTGTAACTTCACTCCATTTCACTGTAACCTCAAGGACATTGAGATCTGTTAC-TAGT
* * * * * **
23556517 TTTAATTTGATCCACTACAACATT--AGGGATATAGGATTTGGTGTAGTAGCTTCATTTTATTCC
65 TTTAATCTGACCCACTGCAAC-TTCAAGAG-TATAGGATTTGTTGTAGTAGCTTCATTCCATTCC
* *
23556580 ACTGTAACCTAAGAGACATTGAGATCTGCTACTTGTTTTAATTCACTTCACTGCAACTTCAGGAA
128 ACTGTAACCTCAGGGACATTGAGATCTGCTACTTGTTTTAATTCACTTCACTGCAACTTCAGG-A
23556645 G-ATAGA
192 GTATAGA
* * * *
23556651 ATTTGTTGTTG-AAGCTTCACTCCATTTCACTATAACCTCAAGGACATTGAGATCTGCTT-CTGG
1 ATTTGGTGCTGTAA-CTTCACTCCATTTCACTGTAACCTCAAGGACATTGAGATCTG-TTACTAG
* **
23556714 CTTTAATCTGACCCACTGCAACTTCAAGAGTATAGGATTTGTTGTAGTAGCTTTGTTCCATTCCA
64 TTTTAATCTGACCCACTGCAACTTCAAGAGTATAGGATTTGTTGTAGTAGCTTCATTCCATTCCA
* * *
23556779 CTATAACCTCAGGGACATTGAGATCTGCTACTTGTTTTAATCCACTACACTGCAACTT
129 CTGTAACCTCAGGGACATTGAGATCTGCTACTTGTTTTAATTCACTTCACTGCAACTT
23556837 TGTTGAAGCT
Statistics
Matches: 313, Mismatches: 54, Indels: 30
0.79 0.14 0.08
Matches are distributed among these distances:
191 1 0.00
192 54 0.17
193 21 0.07
194 2 0.01
195 1 0.00
196 2 0.01
197 3 0.01
198 107 0.34
199 117 0.37
200 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (198 bp):
ATTTGGTGCTGTAACTTCACTCCATTTCACTGTAACCTCAAGGACATTGAGATCTGTTACTAGTT
TTAATCTGACCCACTGCAACTTCAAGAGTATAGGATTTGTTGTAGTAGCTTCATTCCATTCCACT
GTAACCTCAGGGACATTGAGATCTGCTACTTGTTTTAATTCACTTCACTGCAACTTCAGGAGTAT
AGA
Found at i:23556929 original size:40 final size:40
Alignment explanation
Indices: 23556873--23556992 Score: 168
Period size: 40 Copynumber: 3.0 Consensus size: 40
23556863 TAACCTCAGG
* * **
23556873 GACATTAAGATCTACTACTTGTTTTAATTTGCTTCACTAC
1 GACATTGAGATATACTACTTGTTTTAATCCGCTTCACTAC
* * *
23556913 GACATTGAGATTTACTACTTGTCTTAATCCGCTTCACTAT
1 GACATTGAGATATACTACTTGTTTTAATCCGCTTCACTAC
*
23556953 GACATTGAGATATACTACTTGTTTTAATCCACTTCACTAC
1 GACATTGAGATATACTACTTGTTTTAATCCGCTTCACTAC
23556993 AACTTTAGGA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.40
Consensus pattern (40 bp):
GACATTGAGATATACTACTTGTTTTAATCCGCTTCACTAC
Found at i:23557980 original size:16 final size:17
Alignment explanation
Indices: 23557959--23558004 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
23557949 TTCTCCTTAT
23557959 TTTTTCTTTTCTTTT-C
1 TTTTTCTTTTCTTTTGC
23557975 TTTTTCTTTT-TTTTGC
1 TTTTTCTTTTCTTTTGC
*
23557991 TTGTTTTTTTTCTT
1 TT-TTTCTTTTCTT
23558005 GTATTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 4 0.15
16 13 0.50
17 7 0.27
18 2 0.08
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTTCTTTTGC
Found at i:23557997 original size:13 final size:12
Alignment explanation
Indices: 23557960--23558013 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
23557950 TCTCCTTATT
23557960 TTTTCTTTTCTT-
1 TTTT-TTTTCTTG
*
23557972 TTCTTTTTC-T-
1 TTTTTTTTCTTG
*
23557982 TTTTTTTGCTTG
1 TTTTTTTTCTTG
23557994 TTTTTTTTCTTG
1 TTTTTTTTCTTG
23558006 TATTTTTT
1 T-TTTTTT
23558014 AGGTGAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 8 0.23
11 6 0.17
12 15 0.43
13 6 0.17
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTTTCTTG
Found at i:23561817 original size:109 final size:108
Alignment explanation
Indices: 23561682--23561894 Score: 284
Period size: 109 Copynumber: 2.0 Consensus size: 108
23561672 AAGAAAGAAC
* * * * *
23561682 ATTTATCAATTTTAATTAGGATATTTAGTTAT-TTAGGTTCAAGGAAAAATCATACCCAGTACGT
1 ATTTATCAATTTTAAATAGGATATTTAATTATGTAAGG-TCAACGAAAAATCATACCCAATACGT
*
23561746 TAGGGCACAATTTCTCGAGTTCCCTAAAATAAAAGAACATTGAAT
65 TAGGGCACAATTTCTCGA-ATCCCTAAAATAAAAGAACATTGAAT
*
23561791 ATTTATCAATTTTAAATAGGATATTTAATTATGTAAGGTCAACGAAAAATCATACCTAATACGTT
1 ATTTATCAATTTTAAATAGGATATTTAATTATGTAAGGTCAACGAAAAATCATACCCAATACGTT
* * * * * *
23561856 AGGGTATAATTTTTCGAATCTCTTAAATAAAATAACATT
66 AGGGCACAATTTCTCGAATCCCTAAAATAAAAGAACATT
23561895 TCCTTTTTCA
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
108 18 0.20
109 68 0.76
110 4 0.04
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (108 bp):
ATTTATCAATTTTAAATAGGATATTTAATTATGTAAGGTCAACGAAAAATCATACCCAATACGTT
AGGGCACAATTTCTCGAATCCCTAAAATAAAAGAACATTGAAT
Found at i:23562236 original size:24 final size:24
Alignment explanation
Indices: 23562182--23562251 Score: 59
Period size: 26 Copynumber: 2.7 Consensus size: 24
23562172 GAAAATAAAT
*
23562182 AAAATAATAAAATAAATCAAGAGGACT
1 AAAATAA-AAAA-AAAT-AAGAGGACC
* *
23562209 AAAATAAAAAAAAATAATAGGGCC
1 AAAATAAAAAAAAATAAGAGGACC
*
23562233 AAAATTTAAAAAGAAATAA
1 AAAA--TAAAAAAAAATAA
23562252 AATAATAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 10 0.27
25 4 0.11
26 16 0.43
27 7 0.19
ACGTcount: A:0.67, C:0.06, G:0.10, T:0.17
Consensus pattern (24 bp):
AAAATAAAAAAAAATAAGAGGACC
Found at i:23564805 original size:20 final size:20
Alignment explanation
Indices: 23564728--23564813 Score: 75
Period size: 20 Copynumber: 4.3 Consensus size: 20
23564718 TGAAATGTTG
* * *
23564728 TGTTTGCCCTTTGGTGCCCC
1 TGTTTGCACTTCGATGCCCC
* *
23564748 TATTTG-AGCTTCGATGTCCC
1 TGTTTGCA-CTTCGATGCCCC
* *
23564768 TATTTGCACTTCAATGCCCC
1 TGTTTGCACTTCGATGCCCC
* *
23564788 TGTTTGCACTTTGGTGCCCC
1 TGTTTGCACTTCGATGCCCC
23564808 TGTTTG
1 TGTTTG
23564814 TACAATTGTA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
20 52 0.98
21 1 0.02
ACGTcount: A:0.09, C:0.29, G:0.21, T:0.41
Consensus pattern (20 bp):
TGTTTGCACTTCGATGCCCC
Found at i:23565428 original size:29 final size:29
Alignment explanation
Indices: 23565389--23565448 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
23565379 CACGATTTAG
* *
23565389 CACACGGTCTGAGACACGGTCGTGTGAAT
1 CACACGATCTGAGACACGATCGTGTGAAT
*
23565418 CACACGATCTGAGACACGATCGTGTGTAT
1 CACACGATCTGAGACACGATCGTGTGAAT
23565447 CA
1 CA
23565449 AGTTAGAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.22
Consensus pattern (29 bp):
CACACGATCTGAGACACGATCGTGTGAAT
Found at i:23565518 original size:21 final size:21
Alignment explanation
Indices: 23565494--23565539 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
23565484 AACACGAGCA
*
23565494 TGTGGAAGGGTCACACAGTCG
1 TGTGGAAGAGTCACACAGTCG
* * *
23565515 TGTGGGAGAGTCACACGGTCT
1 TGTGGAAGAGTCACACAGTCG
23565536 TGTG
1 TGTG
23565540 ACCCCTATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (21 bp):
TGTGGAAGAGTCACACAGTCG
Found at i:23567287 original size:26 final size:26
Alignment explanation
Indices: 23567247--23567306 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
23567237 CTATCAAATG
*
23567247 CAGCGACAATTCTGGACATGTTCATA
1 CAGCGACAATTCTGGACATGCTCATA
* * *
23567273 CAGTGACAATTCTGGATATGCTCATG
1 CAGCGACAATTCTGGACATGCTCATA
23567299 CAGCGACA
1 CAGCGACA
23567307 TTAGTAGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (26 bp):
CAGCGACAATTCTGGACATGCTCATA
Found at i:23567765 original size:15 final size:14
Alignment explanation
Indices: 23567745--23567780 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
23567735 TATACATATT
*
23567745 TTTTTTTTCTTTTCC
1 TTTTTTTTCTTCT-C
23567760 TTTTTTTTCTTCTC
1 TTTTTTTTCTTCTC
23567774 TTTTTTT
1 TTTTTTT
23567781 ATGCGATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTTCTTCTC
Found at i:23568454 original size:26 final size:26
Alignment explanation
Indices: 23568418--23568482 Score: 121
Period size: 26 Copynumber: 2.5 Consensus size: 26
23568408 TAACAGACTA
*
23568418 AAAATTACAGCTACATGTTATGGATG
1 AAAATTACAGCTACATGTTATGCATG
23568444 AAAATTACAGCTACATGTTATGCATG
1 AAAATTACAGCTACATGTTATGCATG
23568470 AAAATTACAGCTA
1 AAAATTACAGCTA
23568483 AAAAAAACTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (26 bp):
AAAATTACAGCTACATGTTATGCATG
Found at i:23582453 original size:13 final size:14
Alignment explanation
Indices: 23582417--23582453 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
23582407 ATCTGGTCAC
23582417 ATTTCTTTTATCTT
1 ATTTCTTTTATCTT
23582431 -TTTACTTTTA-CTT
1 ATTT-CTTTTATCTT
23582444 ATTTCTTTTA
1 ATTTCTTTTA
23582454 AATATTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTCTTTTATCTT
Found at i:23591855 original size:20 final size:20
Alignment explanation
Indices: 23591827--23591934 Score: 101
Period size: 20 Copynumber: 5.5 Consensus size: 20
23591817 AGATGAAATG
23591827 CCCTGTTTGCACTTCGGTGC
1 CCCTGTTTGCACTTCGGTGC
* * *
23591847 CCCTATTTGCGCTTCAGTGC
1 CCCTGTTTGCACTTCGGTGC
* * **
23591867 CTCTGTTTACACTTCAATGC
1 CCCTGTTTGCACTTCGGTGC
*
23591887 CCCTGTTTGCACTTTGGTGC
1 CCCTGTTTGCACTTCGGTGC
* * *
23591907 CCTTG-TTACACTTCGGTGA
1 CCCTGTTTGCACTTCGGTGC
*
23591926 CCCTATTTG
1 CCCTGTTTG
23591935 TACAACTGTA
Statistics
Matches: 67, Mismatches: 20, Indels: 2
0.75 0.22 0.02
Matches are distributed among these distances:
19 14 0.21
20 53 0.79
ACGTcount: A:0.11, C:0.31, G:0.19, T:0.38
Consensus pattern (20 bp):
CCCTGTTTGCACTTCGGTGC
Found at i:23597677 original size:23 final size:24
Alignment explanation
Indices: 23597624--23597681 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
23597614 GGTTGTAAAT
* *
23597624 ATAATTTA-TTTTGGAACTTTTTG
1 ATAATTTATTTTTGGAACGTTTAG
*
23597647 ATATTTTATTTTTGGAA-GTTTAG
1 ATAATTTATTTTTGGAACGTTTAG
*
23597670 TTAATTTATTTT
1 ATAATTTATTTT
23597682 CTTATTAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 21 0.72
24 8 0.28
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (24 bp):
ATAATTTATTTTTGGAACGTTTAG
Found at i:23598633 original size:6 final size:6
Alignment explanation
Indices: 23598622--23598654 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
23598612 CCTAAGATCC
23598622 TCACCT TCACCT TCACCT TCACCT TCACCT TCA
1 TCACCT TCACCT TCACCT TCACCT TCACCT TCA
23598655 TCTATTGTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.48, G:0.00, T:0.33
Consensus pattern (6 bp):
TCACCT
Found at i:23600330 original size:23 final size:22
Alignment explanation
Indices: 23600304--23600346 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
23600294 AAAAAATTAA
23600304 AATTAAAATTAATTTA-GAAATTT
1 AATTAAAA--AATTTATGAAATTT
23600327 AATTAAAAAATTTATGAAAT
1 AATTAAAAAATTTATGAAAT
23600347 ATTGGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (22 bp):
AATTAAAAAATTTATGAAATTT
Found at i:23612404 original size:19 final size:19
Alignment explanation
Indices: 23612371--23612414 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
23612361 ATATTATAAT
*
23612371 ATTTATAAAGTTTATATTA
1 ATTTATAAAGGTTATATTA
* * *
23612390 TTTTATATAGGTTATTTTA
1 ATTTATAAAGGTTATATTA
23612409 ATTTAT
1 ATTTAT
23612415 TTGGTTTCCT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (19 bp):
ATTTATAAAGGTTATATTA
Found at i:23623171 original size:6 final size:6
Alignment explanation
Indices: 23623139--23623178 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
23623129 TAACAATGGT
*
23623139 GGAAAG GAGAAAG GAGAAAG GGGAAG GGAAAG GGAAAG GG
1 GGAAAG G-GAAAG G-GAAAG GGAAAG GGAAAG GGAAAG GG
23623179 GAAATGGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 18 0.58
7 13 0.42
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (6 bp):
GGAAAG
Found at i:23623177 original size:18 final size:20
Alignment explanation
Indices: 23623142--23623181 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
23623132 CAATGGTGGA
23623142 AAGGAGAAAGGAGAAAGGGG
1 AAGGAGAAAGGAGAAAGGGG
23623162 AAGG-GAAAGG-GAAAGGGG
1 AAGGAGAAAGGAGAAAGGGG
23623180 AA
1 AA
23623182 ATGGGGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 6 0.30
20 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (20 bp):
AAGGAGAAAGGAGAAAGGGG
Found at i:23623187 original size:26 final size:26
Alignment explanation
Indices: 23623139--23623190 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
23623129 TAACAATGGT
23623139 GGAAAGGAGAAAGGAGAAAGGGGAAG
1 GGAAAGGAGAAAGGAGAAAGGGGAAG
*
23623165 GGAAAGG-GAAAGGGGAAATGGGGAAG
1 GGAAAGGAGAAAGGAGAAA-GGGGAAG
23623191 AGGTTTTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.46, C:0.00, G:0.52, T:0.02
Consensus pattern (26 bp):
GGAAAGGAGAAAGGAGAAAGGGGAAG
Found at i:23623189 original size:8 final size:7
Alignment explanation
Indices: 23623139--23623189 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
23623129 TAACAATGGT
23623139 GGAAAGG
1 GGAAAGG
*
23623146 AGAAAGG
1 GGAAAGG
*
23623153 AGAAAGG
1 GGAAAGG
23623160 GG-AA-G
1 GGAAAGG
23623165 GGAAA-G
1 GGAAAGG
23623171 GGAAAGG
1 GGAAAGG
23623178 GGAAATGG
1 GGAAA-GG
23623186 GGAA
1 GGAA
23623190 GAGGTTTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
5 3 0.08
6 10 0.26
7 20 0.51
8 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.51, T:0.02
Consensus pattern (7 bp):
GGAAAGG
Found at i:23623433 original size:21 final size:19
Alignment explanation
Indices: 23623401--23623439 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
23623391 ATTTATTTTA
23623401 ATATTAAATAAATATAATT
1 ATATTAAATAAATATAATT
23623420 ATATTAATATTAAATATAAT
1 ATATTAA-A-TAAATATAAT
23623440 AAAAATCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTAAATAAATATAATT
Found at i:23626655 original size:21 final size:19
Alignment explanation
Indices: 23626621--23626659 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
23626611 TTTTATTTTA
23626621 ATATTAAATAAATATAATT
1 ATATTAAATAAATATAATT
23626640 ATATTAATATTAAATATAAT
1 ATATTAA-A-TAAATATAAT
23626660 AAAAATTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTAAATAAATATAATT
Found at i:23628235 original size:12 final size:11
Alignment explanation
Indices: 23628221--23628254 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
23628211 TTACTGCTAT
23628221 TTTTGTTGTTG
1 TTTTGTTGTTG
23628232 TTTTGATTGTTGG
1 TTTTG-TTGTT-G
23628245 TTTTGTTGTT
1 TTTTGTTGTT
23628255 TGGGTGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 10 0.48
13 6 0.29
ACGTcount: A:0.03, C:0.00, G:0.26, T:0.71
Consensus pattern (11 bp):
TTTTGTTGTTG
Found at i:23630105 original size:21 final size:19
Alignment explanation
Indices: 23630071--23630109 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
23630061 TTTTATTTTA
23630071 ATATTAAATAAATATAATT
1 ATATTAAATAAATATAATT
23630090 ATATTAATATTAAATATAAT
1 ATATTAA-A-TAAATATAAT
23630110 AAAAATCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTAAATAAATATAATT
Found at i:23632098 original size:26 final size:27
Alignment explanation
Indices: 23632061--23632125 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
23632051 TACCCAATTA
* *
23632061 ATAGGCGGCACCAAAA-TGCCTGTCCC
1 ATAGGCGGCACCAAAAGCGCCTATCCC
* *
23632087 ATAGGCGACACCAAAAGCGCCTATCCT
1 ATAGGCGGCACCAAAAGCGCCTATCCC
23632114 ATAGGCGGCACC
1 ATAGGCGGCACC
23632126 CATGTCACAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 15 0.45
27 18 0.55
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (27 bp):
ATAGGCGGCACCAAAAGCGCCTATCCC
Found at i:23632366 original size:27 final size:27
Alignment explanation
Indices: 23632313--23632366 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
23632303 GTTGGTGTTG
* *
23632313 TTTTTAATTTATTTTAAAATTATTTTA
1 TTTTTAATTTATTATAAAATTAGTTTA
*
23632340 TTTTTAA-TTATTATAAAGTTTAGTTTA
1 TTTTTAATTTATTATAAA-ATTAGTTTA
23632367 ATACTTATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (27 bp):
TTTTTAATTTATTATAAAATTAGTTTA
Found at i:23632439 original size:15 final size:17
Alignment explanation
Indices: 23632419--23632456 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
23632409 TATAGGAAAT
23632419 TTTATTGA-AA-TTTTA
1 TTTATTGAGAATTTTTA
23632434 TTTATTGAGAATTTTTA
1 TTTATTGAGAATTTTTA
23632451 TTTATT
1 TTTATT
23632457 TTTTAACAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.38
16 2 0.10
17 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (17 bp):
TTTATTGAGAATTTTTA
Found at i:23646148 original size:13 final size:14
Alignment explanation
Indices: 23646112--23646151 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
23646102 TTTAAAAAAT
23646112 AAATCATTTTTCAA
1 AAATCATTTTTCAA
*
23646126 AAATCATTTTTCGA
1 AAATCATTTTTCAA
23646140 AAATC-TTTTTCA
1 AAATCATTTTTCA
23646152 TTGAAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.45
Consensus pattern (14 bp):
AAATCATTTTTCAA
Found at i:23654598 original size:42 final size:42
Alignment explanation
Indices: 23654543--23654655 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
23654533 AACTTAAAGG
*
23654543 GAAAGCACGTCTAGCTAGGCGAGCTTTTCGGACATGTGTAAA
1 GAAAGCACGTCTAGCTAGGCGAGCTTTCCGGACATGTGTAAA
* * *
23654585 GAAAGCACTTCTAGCTAGGCGAGCTTTCCTGACATGTGTAAG
1 GAAAGCACGTCTAGCTAGGCGAGCTTTCCGGACATGTGTAAA
* * *
23654627 GAAAGCTCGTCCAGCT-GGACGCGCTTTCC
1 GAAAGCACGTCTAGCTAGG-CGAGCTTTCC
23654656 AAAAAGCTCG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 2 0.03
42 60 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (42 bp):
GAAAGCACGTCTAGCTAGGCGAGCTTTCCGGACATGTGTAAA
Found at i:23655274 original size:21 final size:21
Alignment explanation
Indices: 23655231--23655275 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23655221 ACGATTAGCA
**
23655231 ACATGGGCATGTGAAAGGGCC
1 ACATGGGCATGTGAAAGAACC
* *
23655252 ACATGGGCATGTGGAATAACC
1 ACATGGGCATGTGAAAGAACC
23655273 ACA
1 ACA
23655276 CAAGTGTGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.20, G:0.31, T:0.16
Consensus pattern (21 bp):
ACATGGGCATGTGAAAGAACC
Found at i:23666330 original size:52 final size:52
Alignment explanation
Indices: 23666252--23666539 Score: 468
Period size: 52 Copynumber: 5.5 Consensus size: 52
23666242 ATGCAAAAGA
23666252 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
*
23666304 TCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
* * * *
23666356 TCTGATGACTATGTGTTATTGTGAGTATATGAATCCTTTATGGATTATAAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
*
23666408 TCCGATGACTATGTGTCATCGTGAGTATATGAATTCTTTACGGATTATAAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
* * *
23666460 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTTCAGATTATGAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
* * *
23666512 TCTGATGACAATGTGTCATCGTAAGTAT
1 TCCGATGACTATGTGTCATCGTGAGTAT
23666540 TAAATGAGAA
Statistics
Matches: 218, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 218 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (52 bp):
TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
Found at i:23671817 original size:26 final size:26
Alignment explanation
Indices: 23671783--23671837 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
23671773 AAAGAAAAAG
23671783 AATTTCATTATCTTCTTCTCTCCCAA
1 AATTTCATTATCTTCTTCTCTCCCAA
*
23671809 AATTTCATTGTCTTCTTCTCTCCCAA
1 AATTTCATTATCTTCTTCTCTCCCAA
23671835 AAT
1 AAT
23671838 GTGAAAAGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.24, C:0.29, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTTCATTATCTTCTTCTCTCCCAA
Found at i:23672193 original size:20 final size:20
Alignment explanation
Indices: 23672168--23672320 Score: 123
Period size: 20 Copynumber: 7.7 Consensus size: 20
23672158 AAGATGAAAT
*
23672168 CCCCTGTTTGTACATTTGTG
1 CCCCTGTTTGCACATTTGTG
*
23672188 CCCCTGATTGCAC-TTCTGTG
1 CCCCTGTTTGCACATT-TGTG
* * *
23672208 CCCTTGTTTGCACATTCGTT
1 CCCCTGTTTGCACATTTGTG
** *
23672228 CCATTGTTTGCAC-TTCGGTG
1 CCCCTGTTTGCACATT-TGTG
*
23672248 CCCCTATTTGCACATTTGTG
1 CCCCTGTTTGCACATTTGTG
* *
23672268 CCCCTATTTGCACTTTTGTG
1 CCCCTGTTTGCACATTTGTG
* * *
23672288 CCCCTAG-TTGAACATTCGTA
1 CCCCT-GTTTGCACATTTGTG
*
23672308 CCCCTGTATGCAC
1 CCCCTGTTTGCAC
23672321 TCCGATGCCC
Statistics
Matches: 106, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
19 5 0.05
20 97 0.92
21 4 0.04
ACGTcount: A:0.13, C:0.31, G:0.18, T:0.39
Consensus pattern (20 bp):
CCCCTGTTTGCACATTTGTG
Found at i:23672216 original size:40 final size:40
Alignment explanation
Indices: 23672168--23672292 Score: 144
Period size: 40 Copynumber: 3.1 Consensus size: 40
23672158 AAGATGAAAT
*
23672168 CCCCTGTTTGTACATTTGTGCCCCTGATTGCACTTCTGTG
1 CCCCTGTTTGCACATTTGTGCCCCTGATTGCACTTCTGTG
* * * ** * *
23672208 CCCTTGTTTGCACATTCGTTCCATTGTTTGCACTTCGGTG
1 CCCCTGTTTGCACATTTGTGCCCCTGATTGCACTTCTGTG
* *
23672248 CCCCTATTTGCACATTTGTGCCCCT-ATTTGCACTTTTGTG
1 CCCCTGTTTGCACATTTGTGCCCCTGA-TTGCACTTCTGTG
23672288 CCCCT
1 CCCCT
23672293 AGTTGAACAT
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.10, C:0.31, G:0.18, T:0.41
Consensus pattern (40 bp):
CCCCTGTTTGCACATTTGTGCCCCTGATTGCACTTCTGTG
Found at i:23672293 original size:40 final size:40
Alignment explanation
Indices: 23672168--23672321 Score: 139
Period size: 40 Copynumber: 3.9 Consensus size: 40
23672158 AAGATGAAAT
* * *
23672168 CCCCTGTTTGTACATTTGTGCCCCTGA-TTGCACTTCTGTG
1 CCCCTATTTGCACATTCGTGCCCCT-ATTTGCACTTCTGTG
* * * ** * *
23672208 CCCTTGTTTGCACATTCGTTCCATTGTTTGCACTTCGGTG
1 CCCCTATTTGCACATTCGTGCCCCTATTTGCACTTCTGTG
* *
23672248 CCCCTATTTGCACATTTGTGCCCCTATTTGCACTTTTGTG
1 CCCCTATTTGCACATTCGTGCCCCTATTTGCACTTCTGTG
* * * * *
23672288 CCCCTAGTTGAACATTCGTACCCCTGTATGCACT
1 CCCCTATTTGCACATTCGTGCCCCTATTTGCACT
23672322 CCGATGCCCG
Statistics
Matches: 90, Mismatches: 23, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.13, C:0.31, G:0.18, T:0.39
Consensus pattern (40 bp):
CCCCTATTTGCACATTCGTGCCCCTATTTGCACTTCTGTG
Found at i:23672320 original size:80 final size:80
Alignment explanation
Indices: 23672168--23672330 Score: 195
Period size: 80 Copynumber: 2.0 Consensus size: 80
23672158 AAGATGAAAT
* * * * * *
23672168 CCCCTGTTTGTACATTTGTGCCCCTGATTGCACTTCTGTGCCCTTGTTTGCACATTCGTTCCATT
1 CCCCTATTTGCACATTTGTGCCCCTGATTGCACTTCTGTGCCCTAGTTTGAACATTCGTACCACT
* * *
23672233 GTTTGCACTTCGGTG
66 GTATGCACTCCGATG
* *
23672248 CCCCTATTTGCACATTTGTGCCCCT-ATTTGCACTTTTGTGCCCCTAG-TTGAACATTCGTACCC
1 CCCCTATTTGCACATTTGTGCCCCTGA-TTGCACTTCTGTG-CCCTAGTTTGAACATTCGTACCA
23672311 CTGTATGCACTCCGATG
64 CTGTATGCACTCCGATG
23672328 CCC
1 CCC
23672331 GTTATGGTAC
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
79 1 0.01
80 64 0.91
81 5 0.07
ACGTcount: A:0.13, C:0.32, G:0.18, T:0.37
Consensus pattern (80 bp):
CCCCTATTTGCACATTTGTGCCCCTGATTGCACTTCTGTGCCCTAGTTTGAACATTCGTACCACT
GTATGCACTCCGATG
Found at i:23673984 original size:2 final size:2
Alignment explanation
Indices: 23673979--23674022 Score: 56
Period size: 2 Copynumber: 22.5 Consensus size: 2
23673969 CTTTCAAGAA
*
23673979 AT AT AT AT AT GAG A- AT AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23674020 AT A
1 AT A
23674023 ACATATGCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
1 2 0.05
2 35 0.92
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:23692411 original size:23 final size:22
Alignment explanation
Indices: 23692379--23692422 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
23692369 TCAATCAAAT
*
23692379 GAAAAAAAAACTAAAAAAAGAC
1 GAAAAAAAAAATAAAAAAAGAC
23692401 GAAAAAGAAAAATAAAAAAAGA
1 GAAAAA-AAAAATAAAAAAAGA
23692423 GAGAGGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.80, C:0.05, G:0.11, T:0.05
Consensus pattern (22 bp):
GAAAAAAAAAATAAAAAAAGAC
Found at i:23692665 original size:29 final size:30
Alignment explanation
Indices: 23692633--23692696 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
23692623 AACATAAATA
**
23692633 ACTAAAACATAACAT-TTCAAACAAAAGTG
1 ACTAAAACATAACATAGGCAAACAAAAGTG
**
23692662 ACTAAAATGTAACATGAGGCAAACAAAAGTG
1 ACTAAAACATAACAT-AGGCAAACAAAAGTG
23692693 ACTA
1 ACTA
23692697 TTTTTGTAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.45
31 16 0.55
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (30 bp):
ACTAAAACATAACATAGGCAAACAAAAGTG
Found at i:23693996 original size:101 final size:105
Alignment explanation
Indices: 23693884--23694132 Score: 265
Period size: 109 Copynumber: 2.4 Consensus size: 105
23693874 GTCTAGTAAG
** *
23693884 TTAGGGCACAATATTTTCGAATCTTTTAAACAA-AGAAC-A-T-TTT-TCAATTTTAAATAGGAA
1 TTAGGGCACAAT-TTTTCGAATCCCTAAAACAACAGAACTAGTATTTATCAATTTTAAATAGGAA
*
23693944 ATTCAATTATTTAGGTTCAAGGAAAAATCATACCCAACACA
65 ATTCAATTATTTAGGTTCAAAGAAAAATCATACCCAACACA
* * * * *
23693985 TTAGGACACAATTTTTCGAGTTCCCTAAAATAACAGAACATTGAGTATTTATCGATTTTGAATAG
1 TTAGGGCACAATTTTTCGA-ATCCCTAAAACAACAGAAC--T-AGTATTTATCAATTTTAAATAG
* * *
23694050 GATATTCAATTATTTAGGTTCAAAGAAAAATCATACCCAATACG
62 GAAATTCAATTATTTAGGTTCAAAGAAAAATCATACCCAACACA
* * * *
23694094 TTAGGGCACAATTTCTCGAATTCCCAAAAATAAAAGAAC
1 TTAGGGCACAATTTTTCGAA-TCCCTAAAACAACAGAAC
23694133 ATTGCCTCAG
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
100 7 0.06
101 19 0.16
102 5 0.04
106 1 0.01
107 1 0.01
108 3 0.02
109 85 0.70
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (105 bp):
TTAGGGCACAATTTTTCGAATCCCTAAAACAACAGAACTAGTATTTATCAATTTTAAATAGGAAA
TTCAATTATTTAGGTTCAAAGAAAAATCATACCCAACACA
Found at i:23694124 original size:109 final size:109
Alignment explanation
Indices: 23693930--23694136 Score: 324
Period size: 109 Copynumber: 1.9 Consensus size: 109
23693920 ACATTTTTCA
*
23693930 ATTTTAAATAGGAAATTCAATTATTTAGGTTCAAGGAAAAATCATACCCAACACATTAGGACACA
1 ATTTTAAATAGGAAATTCAATTATTTAGGTTCAAAGAAAAATCATACCCAACACATTAGGACACA
* * * *
23693995 ATTTTTCGAGTTCCCTAAAATAACAGAACATTGAGTATTTATCG
66 ATTTCTCGAATTCCCAAAAATAAAAGAACATTGAGTATTTATCG
* * * * *
23694039 ATTTTGAATAGGATATTCAATTATTTAGGTTCAAAGAAAAATCATACCCAATACGTTAGGGCACA
1 ATTTTAAATAGGAAATTCAATTATTTAGGTTCAAAGAAAAATCATACCCAACACATTAGGACACA
23694104 ATTTCTCGAATTCCCAAAAATAAAAGAACATTG
66 ATTTCTCGAATTCCCAAAAATAAAAGAACATTG
23694137 CCTCAGTTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
109 88 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (109 bp):
ATTTTAAATAGGAAATTCAATTATTTAGGTTCAAAGAAAAATCATACCCAACACATTAGGACACA
ATTTCTCGAATTCCCAAAAATAAAAGAACATTGAGTATTTATCG
Found at i:23700145 original size:14 final size:14
Alignment explanation
Indices: 23700113--23700149 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
23700103 GCATAATACT
23700113 TAAAAG-AAACAAG
1 TAAAAGTAAACAAG
23700126 TAAAAGTAAA-AAG
1 TAAAAGTAAACAAG
23700139 ATAAAAGTAAA
1 -TAAAAGTAAA
23700150 TTTAATAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.70, C:0.03, G:0.14, T:0.14
Consensus pattern (14 bp):
TAAAAGTAAACAAG
Found at i:23708183 original size:24 final size:24
Alignment explanation
Indices: 23708156--23708226 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
23708146 TATTGTTGTA
23708156 CTTGTTGTGAAATAAATGGATTTG
1 CTTGTTGTGAAATAAATGGATTTG
* ** *
23708180 CTTG--GATG-TAT-AA-GGAGATA
1 CTTGTTG-TGAAATAAATGGATTTG
23708200 CTTGTTGTGAAATAAATGGATTTG
1 CTTGTTGTGAAATAAATGGATTTG
23708224 CTT
1 CTT
23708227 TGATGTATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
20 8 0.24
21 4 0.12
22 6 0.18
23 4 0.12
24 11 0.33
ACGTcount: A:0.30, C:0.06, G:0.25, T:0.39
Consensus pattern (24 bp):
CTTGTTGTGAAATAAATGGATTTG
Found at i:23708217 original size:44 final size:44
Alignment explanation
Indices: 23708154--23708241 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
23708144 AATATTGTTG
23708154 TACTTGTTGTGAAATAAATGGATTTGCTTGGATGTATAAGGAGA
1 TACTTGTTGTGAAATAAATGGATTTGCTTGGATGTATAAGGAGA
*
23708198 TACTTGTTGTGAAATAAATGGATTTGCTTTGATGTATAAGGAGA
1 TACTTGTTGTGAAATAAATGGATTTGCTTGGATGTATAAGGAGA
23708242 CTATGAGTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.38
Consensus pattern (44 bp):
TACTTGTTGTGAAATAAATGGATTTGCTTGGATGTATAAGGAGA
Found at i:23708865 original size:51 final size:51
Alignment explanation
Indices: 23708653--23708889 Score: 300
Period size: 51 Copynumber: 4.6 Consensus size: 51
23708643 GCTATAAACG
* **
23708653 AAAGAGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGGTT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATT
* *
23708705 AAAGGTTC-AGTGACTAAGTGTCATCGTGAGCAAATGAATCCTTTAC-AGATT
1 AAAGGTCCGA-TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGA-ATT
* * *
23708756 AAAGGTCTGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATT
* * *
23708807 AAAGGTCCGATAACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATT
* *
23708858 AAAGGTCCGATGAC-AATATGTCATTGTGAGTA
1 AAAGGTCCGATGACTAA-GTGTCATCGTGAGTA
23708890 TTAAATGAGA
Statistics
Matches: 161, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
50 3 0.02
51 154 0.96
52 4 0.02
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATT
Found at i:23714973 original size:51 final size:51
Alignment explanation
Indices: 23714883--23715170 Score: 427
Period size: 51 Copynumber: 5.6 Consensus size: 51
23714873 GCTATAAACG
* *
23714883 AAAGAGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATAGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
* *
23714935 AAAGGTCCGATGGCTAAGTGTCATTGTGAGTAAATGAATCCTTTACAGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
*
23714986 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATAGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
* *
23715037 AAAGGTCCGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
* * * *
23715088 AAAGGTCCGATGACTAAGTTTTATCGTGAGTAAATGAATCCATGAC-GAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAG-ATT
*
23715139 AAAGGTCCGATGAC-AATATGTCATCGTGAGTA
1 AAAGGTCCGATGACTAA-GTGTCATCGTGAGTA
23715171 TTAAATGAAA
Statistics
Matches: 216, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
50 3 0.01
51 209 0.97
52 4 0.02
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
Found at i:23717084 original size:21 final size:21
Alignment explanation
Indices: 23717042--23717085 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23717032 GCCTTGCTTT
*
23717042 TTGCGCTTCTTTTTCTTATCC
1 TTGCGCTTCTCTTTCTTATCC
*
23717063 TTGCGCTTTCTCTTT-TTGTCC
1 TTGCGC-TTCTCTTTCTTATCC
23717084 TT
1 TT
23717086 TGAATCAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.02, C:0.27, G:0.11, T:0.59
Consensus pattern (21 bp):
TTGCGCTTCTCTTTCTTATCC
Found at i:23720710 original size:16 final size:16
Alignment explanation
Indices: 23720687--23720742 Score: 94
Period size: 16 Copynumber: 3.5 Consensus size: 16
23720677 CGTTTGGTTC
23720687 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
23720703 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
23720719 GCTGTAATGGAATAGG
1 GCTGTAATGGAATAGA
23720735 GCTGTAAT
1 GCTGTAAT
23720743 CAGTAATTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.34, C:0.05, G:0.32, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:23723900 original size:28 final size:28
Alignment explanation
Indices: 23723860--23723916 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
23723850 TTCACGACTA
23723860 AGACAAGAAAACCTAGGGTTTTCCATTG
1 AGACAAGAAAACCTAGGGTTTTCCATTG
23723888 AGACAAGAAAACCTAGGGTTTTCCATTG
1 AGACAAGAAAACCTAGGGTTTTCCATTG
23723916 A
1 A
23723917 TGAACTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (28 bp):
AGACAAGAAAACCTAGGGTTTTCCATTG
Found at i:23724719 original size:24 final size:24
Alignment explanation
Indices: 23724630--23724711 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
23724620 ATTCTGATTT
*
23724630 TGGGCTCGTAAGAGCTAACGATTC
1 TGGGCTCGTAAGAGCTAACCATTC
* *
23724654 TGGGCTCGTAATAGCTAACCATTA
1 TGGGCTCGTAAGAGCTAACCATTC
23724678 TGGGCTCGTAAGAGCTAACCATTC
1 TGGGCTCGTAAGAGCTAACCATTC
*
23724702 GGGGCTCGTA
1 TGGGCTCGTA
23724712 TGGGCTAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (24 bp):
TGGGCTCGTAAGAGCTAACCATTC
Found at i:23727716 original size:28 final size:28
Alignment explanation
Indices: 23727658--23727716 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
23727648 TTTGAGAGTG
* *
23727658 ATAAAAGGGAAATAATGGTAAGTTAGTA
1 ATAAAAGGGAAATAATGGTAAGATAGCA
* *
23727686 ATAAAAGGGCAATAATGGATATGATA-CA
1 ATAAAAGGGAAATAATGG-TAAGATAGCA
23727714 ATA
1 ATA
23727717 CAATACAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.51, C:0.03, G:0.22, T:0.24
Consensus pattern (28 bp):
ATAAAAGGGAAATAATGGTAAGATAGCA
Found at i:23728435 original size:19 final size:20
Alignment explanation
Indices: 23728413--23728457 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
23728403 TTATATTAGG
23728413 ATTTAAT-ATTTAAGATAT-T
1 ATTTAATCATTTAA-ATATGT
*
23728432 ATTT-ATCATTTAAATTTGT
1 ATTTAATCATTTAAATATGT
23728451 ATTTAAT
1 ATTTAAT
23728458 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 5 0.23
19 15 0.68
20 2 0.09
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
ATTTAATCATTTAAATATGT
Found at i:23729277 original size:15 final size:16
Alignment explanation
Indices: 23729257--23729286 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23729247 CTTCCCTATT
23729257 TTCTATTT-CTTTTAA
1 TTCTATTTACTTTTAA
23729272 TTCTATTTACTTTTA
1 TTCTATTTACTTTTA
23729287 TTTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCTATTTACTTTTAA
Found at i:23729305 original size:21 final size:22
Alignment explanation
Indices: 23729266--23729312 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
23729256 TTTCTATTTC
23729266 TTTTAATTCTATTTACTTTTAT
1 TTTTAATTCTATTTACTTTTAT
* *
23729288 TTTTAATTTTGTTT-CTTTTAT
1 TTTTAATTCTATTTACTTTTAT
23729309 TTTT
1 TTTT
23729313 CCTTAGATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTAATTCTATTTACTTTTAT
Found at i:23732063 original size:18 final size:17
Alignment explanation
Indices: 23732035--23732081 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 17
23732025 CCCAATTATT
23732035 TTTATTTATTTTATTT-
1 TTTATTTATTTTATTTA
23732051 TTCTATCTTATTTTATTTA
1 TT-TAT-TTATTTTATTTA
23732070 TTTATTTATTTT
1 TTTATTTATTTT
23732082 TGTCTAGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 2 0.07
17 10 0.36
18 14 0.50
19 2 0.07
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTATTTTATTTA
Found at i:23734512 original size:21 final size:22
Alignment explanation
Indices: 23734456--23734516 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
23734446 TTCGACTTCC
*
23734456 CTATTTTCTATT-TCTTTTAATT
1 CTATTTACTATTAT-TTTTAATT
23734478 CTATTTACTATTATTTTTAATT
1 CTATTTACTATTATTTTTAATT
* * *
23734500 TTGTTT-CTTTTATTTTT
1 CTATTTACTATTATTTTT
23734517 CCTTAGATCG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.29
22 23 0.68
23 1 0.03
ACGTcount: A:0.18, C:0.10, G:0.02, T:0.70
Consensus pattern (22 bp):
CTATTTACTATTATTTTTAATT
Found at i:23752355 original size:30 final size:29
Alignment explanation
Indices: 23752321--23752582 Score: 186
Period size: 30 Copynumber: 8.8 Consensus size: 29
23752311 GTTTTATTTA
* *
23752321 AAAATCACATTTTAACCATCAAAATTTTCC
1 AAAATTACATTTTAACC-CCAAAATTTTCC
* * * *
23752351 AAAATTATATTTTGACCCCTAAATTTTTCT
1 AAAATTACATTTTAACCCC-AAAATTTTCC
* * * *
23752381 AATATTACATTTTAACCCTTAAACTTTTCT
1 AAAATTACATTTTAACCC-CAAAATTTTCC
* * *
23752411 AAAATTGCATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTAACCCC-AAAATTTTCC
* *
23752441 AAAATTACATGTTAACCCCCAAACTTTTCC
1 AAAATTACATTTTAA-CCCCAAAATTTTCC
* *
23752471 AAAATTACATTTTGATCCTC-AAATTTTCCC
1 AAAATTACATTTT-AACCCCAAAATTTT-CC
* * * **
23752501 AAAATCAAATTTTGACCTCC-AAACCTTCC
1 AAAATTACATTTTAACC-CCAAAATTTTCC
* * *
23752530 TAAAATCACATTTTGACCCCTAAATTTTTCC
1 -AAAATTACATTTTAACCCC-AAAATTTTCC
*
23752561 AAAATTATATTTTAACCCCAAA
1 AAAATTACATTTTAACCCCAAA
23752583 TTCTCTGAAA
Statistics
Matches: 185, Mismatches: 37, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
29 16 0.09
30 158 0.85
31 11 0.06
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (29 bp):
AAAATTACATTTTAACCCCAAAATTTTCC
Found at i:23752423 original size:60 final size:60
Alignment explanation
Indices: 23752321--23752582 Score: 289
Period size: 60 Copynumber: 4.4 Consensus size: 60
23752311 GTTTTATTTA
* * * * *
23752321 AAAATCACATTTTAACCATCAAAATTTTCCAAAATTATATTTTGACCCCTAAATTTTTCT
1 AAAATTACATTTTAACCCTCAAACTTTTCCAAAATTACATTTTGACCCCTAAATTTTTCC
* * * * *
23752381 AATATTACATTTTAACCCTTAAACTTTTCTAAAATTGCATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTAACCCTCAAACTTTTCCAAAATTACATTTTGACCCCTAAATTTTTCC
* * * *
23752441 AAAATTACATGTTAACCCCCAAACTTTTCCAAAATTACATTTTGA-TCCTCAAATTTTCCC
1 AAAATTACATTTTAACCCTCAAACTTTTCCAAAATTACATTTTGACCCCT-AAATTTTTCC
* * * * *
23752501 AAAATCAAATTTTGA-CCTCCAAAC-CTTCCTAAAATCACATTTTGACCCCTAAATTTTTCC
1 AAAATTACATTTTAACCCT-CAAACTTTTCC-AAAATTACATTTTGACCCCTAAATTTTTCC
*
23752561 AAAATTATATTTTAACCC-CAAA
1 AAAATTACATTTTAACCCTCAAA
23752583 TTCTCTGAAA
Statistics
Matches: 166, Mismatches: 31, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
59 13 0.08
60 148 0.89
61 5 0.03
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (60 bp):
AAAATTACATTTTAACCCTCAAACTTTTCCAAAATTACATTTTGACCCCTAAATTTTTCC
Found at i:23752439 original size:90 final size:90
Alignment explanation
Indices: 23752321--23752584 Score: 277
Period size: 90 Copynumber: 2.9 Consensus size: 90
23752311 GTTTTATTTA
* * * * * *
23752321 AAAATCACATTTTAACCAT-CAAAATTTTCCAAAATTATATTTTGACCCCTAAATTTTTCTAATA
1 AAAATCAAATTTTGACC-TCCAAACTTTTCCAAAATTACATTTTGACCCCTAAATTTTTCCAAAA
* *
23752385 TTACATTTTAACCCTTAAACTTTT-CT
65 TTACATTTTAACCCTCAAA-TTTTCCC
*** * * * *
23752411 AAAATTGCATTTTGACC-CCTAAACTTTTCCAAAATTACATGTTAACCCCCAAACTTTTCCAAAA
1 AAAATCAAATTTTGACCTCC-AAACTTTTCCAAAATTACATTTTGACCCCTAAATTTTTCCAAAA
* *
23752475 TTACATTTTGATCCTCAAATTTTCCC
65 TTACATTTTAACCCTCAAATTTTCCC
* *
23752501 AAAATCAAATTTTGACCTCCAAAC-CTTCCTAAAATCACATTTTGACCCCTAAATTTTTCCAAAA
1 AAAATCAAATTTTGACCTCCAAACTTTTCC-AAAATTACATTTTGACCCCTAAATTTTTCCAAAA
*
23752565 TTATATTTTAACCC-CAAATT
65 TTACATTTTAACCCTCAAATT
23752585 CTCTGAAACT
Statistics
Matches: 142, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
89 15 0.11
90 125 0.88
91 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.38
Consensus pattern (90 bp):
AAAATCAAATTTTGACCTCCAAACTTTTCCAAAATTACATTTTGACCCCTAAATTTTTCCAAAAT
TACATTTTAACCCTCAAATTTTCCC
Found at i:23761445 original size:85 final size:83
Alignment explanation
Indices: 23761336--23761587 Score: 342
Period size: 85 Copynumber: 3.0 Consensus size: 83
23761326 CAAACCTCAT
*
23761336 CTTTCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGCCATCTTCCTGATGAGATACA
1 CTTTCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACA
23761401 AATAAGTGAACCAAATCCG
66 AA-AAGTGAACCAAATCCG
* *
23761420 CTTTCTTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCAGTCATTTTCCTGATGAGATAC
1 CTTTC-TGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATAC
* * *
23761485 AGAGAAGTGGACCAAATCTG
65 A-AAAAGTGAACCAAATCCG
* * * * * *
23761505 CCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCTTGATGAGATAC
1 -CTTTCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATAC
*
23761570 AGAAAAGTAAACCAAATC
65 A-AAAAGTGAACCAAATC
23761588 AATGAAGCGA
Statistics
Matches: 148, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
84 5 0.03
85 138 0.93
86 5 0.03
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (83 bp):
CTTTCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACA
AAAAGTGAACCAAATCCG
Found at i:23761700 original size:208 final size:208
Alignment explanation
Indices: 23761421--23762211 Score: 1231
Period size: 208 Copynumber: 3.8 Consensus size: 208
23761411 CCAAATCCGC
* * * * *
23761421 TTTCTTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGCAGTCATTTTCCTGATGAGATACA
1 TTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACA
23761486 GAGAAGTGGACCAAATCTGCCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGT
66 GAGAAGTGGACCAAATCTGCCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGT
* *
23761551 CATCTTCTTGATGAGATACAGAAAAGTAAACCAAATCAATGAAGCGAAGCTCAATACGAATGAGA
131 CATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGA
23761616 CTTCAAACCCCAT
196 CTTCAAACCCCAT
* **
23761629 TTTCCTAATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTTTGATGAGATACA
1 TTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACA
*
23761694 GAGAAGTGGACTAAATCTGCCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGT
66 GAGAAGTGGACCAAATCTGCCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGT
* *
23761759 CACCTTCTTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGA
131 CATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGA
* *
23761824 CTTCAAATCTCAT
196 CTTCAAACCCCAT
* *
23761837 TTTTCTGATGAGATACAAAGAAATGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACA
1 TTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACA
* * *
23761902 GAGAAGTGGACCAAATCTGCCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCAGT
66 GAGAAGTGGACCAAATCTGCCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGT
* * * *
23761967 CATCTTCCTGATGATATACAGAAAAGTAGACCAAATCAACGAAGCGAAGCTCAATACGAATAAAA
131 CATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGA
*
23762032 CTTCAAACCCTAT
196 CTTCAAACCCCAT
* * * * * * *
23762045 CTTCCTGATAAGATACAGAGAAGTGGGTTAAAGTAATAAAGCGGTCATCTTCTTGATGAGATATA
1 TTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACA
* * *
23762110 GAGAAGTGGACCAAATCTGCCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGAT
66 GAGAAGTGGACCAAATCTGCCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGT
* * * *
23762175 CATCTTCCTAATGAGATATAGAGAAGTGGACCAAATC
131 CATCTTCCTGATGAGATACAGAAAAGTAGACCAAATC
23762212 CGCCTTCCTA
Statistics
Matches: 536, Mismatches: 47, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
208 536 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (208 bp):
TTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACA
GAGAAGTGGACCAAATCTGCCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGT
CATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGA
CTTCAAACCCCAT
Found at i:23761773 original size:85 final size:85
Alignment explanation
Indices: 23761630--23761795 Score: 242
Period size: 85 Copynumber: 2.0 Consensus size: 85
23761620 AAACCCCATT
* * *
23761630 TTCCTAATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTTTGATGAGATACAG
1 TTCCTAATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCGGTCACCTTCTTGATGAGATACAG
* * *
23761695 AGAAGTGGACTAAATCTGCC
66 AAAAGTAGACCAAATCTGCC
* * * *
23761715 TTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGTCACCTTCTTGATGAGATACAG
1 TTCCTAATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCGGTCACCTTCTTGATGAGATACAG
23761780 AAAAGTAGACCAAATC
66 AAAAGTAGACCAAATC
23761796 AATGAAGCGA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (85 bp):
TTCCTAATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCGGTCACCTTCTTGATGAGATACAG
AAAAGTAGACCAAATCTGCC
Found at i:23761795 original size:48 final size:48
Alignment explanation
Indices: 23761713--23761804 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
23761703 ACTAAATCTG
* **
23761713 CCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGTCA
1 CCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGGTCA
*
23761761 CCTTCTTGATGAGATACAGAA-AAGTAGACCAAATCAATGAAGCG
1 CCTTCCTGATGAGATACA-AAGAAGTAGACCAAATCAATGAAGCG
23761805 AAGCTCAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 37 0.95
49 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (48 bp):
CCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGGTCA
Found at i:23761955 original size:123 final size:122
Alignment explanation
Indices: 23761681--23761955 Score: 260
Period size: 123 Copynumber: 2.2 Consensus size: 122
23761671 GGTCATCTTT
* * *
23761681 TTGATGAGATACAGAGAAGTGGACTAAATCTGCCTTCCTGATGAGATACAAAGAAGTGGATTAAA
1 TTGATGAGATACAGAGAAGTGGATTAAATCTGCCTTCCTGATGAGATACAAAGAAATGGATCAAA
* * *
23761746 TCAATGAAGCGGTCACCTTCTTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGC
66 GCAATAAAGCGGTCACCTTCCTGATGAGATACAGAAAAGTAGACCAAATC-ATGAAGC
* * * *
23761804 --GA--AGCT-CAATACGAA-TGAGACTTCAAATCT-CATTTTTCTGATGAGATACAAAGAAATG
1 TTGATGAGATAC-AGA-GAAGTG-GA-TT-AAATCTGC--CTTCCTGATGAGATACAAAGAAATG
* * * * ***
23761862 GGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC-TGCCTTC
59 GATCAAAGCAATAAAGCGGTCACCTTCCTGATGAGATACAGAAAAGTAGACCAAATCATG-AAGC
23761926 TTGATGAGATACAGAGAAGTGGATTAAATC
1 TTGATGAGATACAGAGAAGTGGATTAAATC
23761956 AATGAAGCAG
Statistics
Matches: 119, Mismatches: 19, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
118 1 0.01
119 7 0.06
120 5 0.04
121 6 0.05
122 7 0.06
123 76 0.64
124 4 0.03
125 5 0.04
126 7 0.06
127 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (122 bp):
TTGATGAGATACAGAGAAGTGGATTAAATCTGCCTTCCTGATGAGATACAAAGAAATGGATCAAA
GCAATAAAGCGGTCACCTTCCTGATGAGATACAGAAAAGTAGACCAAATCATGAAGC
Found at i:23761986 original size:85 final size:85
Alignment explanation
Indices: 23761842--23762003 Score: 234
Period size: 85 Copynumber: 1.9 Consensus size: 85
23761832 CTCATTTTTC
* * *
23761842 TGATGAGATACAAAGAAATGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAA
1 TGATGAGATACAAAGAAATGGATCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACAGAAAA
*
23761907 GTGGACCAAATCTGCCTTCT
66 GTAGACCAAATCTGCCTTCT
* * * * * *
23761927 TGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCAGTCATCTTCCTGATGATATACAGAAAA
1 TGATGAGATACAAAGAAATGGATCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACAGAAAA
23761992 GTAGACCAAATC
66 GTAGACCAAATC
23762004 AACGAAGCGA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (85 bp):
TGATGAGATACAAAGAAATGGATCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACAGAAAA
GTAGACCAAATCTGCCTTCT
Found at i:23762198 original size:85 final size:85
Alignment explanation
Indices: 23762045--23762296 Score: 371
Period size: 85 Copynumber: 3.0 Consensus size: 85
23762035 CAAACCCTAT
* * * *
23762045 CTTCCTGATAAGATACAGAGAAGTGGGTTAAAGT-AATAAAGCGGTCATCTTCTTGATGAGATAT
1 CTTCCTGATGAGATACAGAGAAGTGGATTAAA-TCAATGAAGCGATCATCTTCTTGATGAGATAT
*
23762109 AGAGAAGTGGACCAAATCTGC
65 AGAGAAGTGGACCAAATCCGC
* * *
23762130 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTAATGAGATATA
1 CTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCTTGATGAGATATA
23762195 GAGAAGTGGACCAAATCCGC
66 GAGAAGTGGACCAAATCCGC
* * * *
23762215 CTTCCTAATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGATCATCTTTTTGATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCTTGATGAGATATA
*
23762280 GAGAAGTAGACCAAATC
66 GAGAAGTGGACCAAATC
23762297 AATGATGCGA
Statistics
Matches: 150, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
84 1 0.01
85 149 0.99
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCTTGATGAGATATA
GAGAAGTGGACCAAATCCGC
Found at i:23762211 original size:48 final size:48
Alignment explanation
Indices: 23762137--23762306 Score: 164
Period size: 48 Copynumber: 3.8 Consensus size: 48
23762127 TGCCTTCTTG
**
23762137 ATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTA
1 ATGAGATACAGAGAAGTGGACCAAATCAATGAAGCGATCATCTTCCTA
*
23762185 ATGAGATATAGAGAAGTGGACCAAATC-------CG--C--CTTCCTA
1 ATGAGATACAGAGAAGTGGACCAAATCAATGAAGCGATCATCTTCCTA
* ** ** *
23762222 ATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGATCATCTTTTTG
1 ATGAGATACAGAGAAGTGGACCAAATCAATGAAGCGATCATCTTCCTA
* *
23762270 ATGAGATACAGAGAAGTAGACCAAATCAATGATGCGA
1 ATGAGATACAGAGAAGTGGACCAAATCAATGAAGCGA
23762307 AGCTCAATAT
Statistics
Matches: 96, Mismatches: 15, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
37 30 0.31
39 1 0.01
41 2 0.02
44 2 0.02
46 1 0.01
48 60 0.62
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (48 bp):
ATGAGATACAGAGAAGTGGACCAAATCAATGAAGCGATCATCTTCCTA
Found at i:23762228 original size:293 final size:292
Alignment explanation
Indices: 23761842--23762796 Score: 1318
Period size: 293 Copynumber: 3.3 Consensus size: 292
23761832 CTCATTTTTC
* * * *
23761842 TGATGAGATACAAAGAAATGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACAGAGAA
1 TGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCGATCATCTTCCTAATGAGATACAGAGAA
*
23761907 GTGGACCAAATCTGCCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCAGTCATCT
66 GTGGACCAAATCTGCCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGC-GTCATCT
* * * * * *
23761972 TCCTGATGATATACAGAAAAGTAGACCAAATCAACGAAGCGAAGCTCAATACGAATAAAACTTCA
130 TCATGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATATGAATGAAACTTCA
* * * *
23762037 AACCCTATCTTCCTGATAAGATACAGAGAAGTGGGTTAAAGTAATAAAGCGGTCATCTTCTTGAT
195 AACCCTATCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGGTCATCTTCTTGAT
*
23762102 GAGATATAGAGAAGTGGACCAAATCTGCCTTCT
260 GAGATACAGAGAAGTGGACCAAATCTGCCTTCT
* * * * *
23762135 TGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTAATGAGATATAGAGAA
1 TGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCGATCATCTTCCTAATGAGATACAGAGAA
* * *
23762200 GTGGACCAAATCCGCCTTCCTAATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGATCATCT
66 GTGGACCAAATCTGCCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCG-TCATCT
** * *
23762265 TTTTGATGAGATACAGAGAAGTAGACCAAATCAATGATGCGAAGCTCAATATGAATGAGACTTCA
130 TCATGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATATGAATGAAACTTCA
* * * * ** *
23762330 AACCCTATCTTCTTGATGAGATATAGAGAAGCGGGTCAAAGCAATAAAACGACCATCTTCCTGAT
195 AACCCTATCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGGTCATCTTCTTGAT
23762395 GAGATACAGAGAAGTGGACCAAATCTGCCTTCT
260 GAGATACAGAGAAGTGGACCAAATCTGCCTTCT
* * **
23762428 TGGTGAGATACAAAGAAGTGGATCGAAGCAATAAAGCTG-TCATCTTTTTAATGAGATACAGAGA
1 TGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGC-GATCATCTTCCTAATGAGATACAGAGA
* *
23762492 AATGGACCAAATCTGCCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGTGGTCATC
65 AGTGGACCAAATCTGCCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAG-CGTCATC
** * * *
23762557 TTCATGATGAGATATTGAGAAGTAGACCCAATCAATGAAGCAAAGCTCAATATGAATGATACTTC
129 TTCATGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATATGAATGAAACTTC
* * * *
23762622 AAACCTTATTTTCTTGATGAGATACAAAGAAGTGGGTCAAAGAAATAAAGTGGTCATCTTCTTGA
194 AAACCCTATCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGGTCATCTTCTTGA
* * **
23762687 TGAGATGCAGAGAAGTGAACCAAATCCACCTTCT
259 TGAGATACAGAGAAGTGGACCAAATCTGCCTTCT
* * * * * *
23762721 TGATGAGATATAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAA
1 TGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCGATCATCTTCCTAATGAGATACAGAGAA
*
23762786 GTAGACCAAAT
66 GTGGACCAAAT
23762797 TAATGAAGTG
Statistics
Matches: 576, Mismatches: 82, Indels: 8
0.86 0.12 0.01
Matches are distributed among these distances:
292 2 0.00
293 572 0.99
294 2 0.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (292 bp):
TGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCGATCATCTTCCTAATGAGATACAGAGAA
GTGGACCAAATCTGCCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGTCATCTT
CATGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATATGAATGAAACTTCAA
ACCCTATCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGGTCATCTTCTTGATG
AGATACAGAGAAGTGGACCAAATCTGCCTTCT
Found at i:23762344 original size:208 final size:208
Alignment explanation
Indices: 23762130--23762504 Score: 545
Period size: 208 Copynumber: 1.8 Consensus size: 208
23762120 CCAAATCTGC
* * * * * * *
23762130 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTAATGAGATATA
1 CTTCTTGATGAGATACAGAGAAGCGGATCAAAGCAATAAAACGACCATCTTCCTAATGAGATACA
* * *
23762195 GAGAAGTGGACCAAATCCGCCTTCCTAATGAGATACAAAGAAGTGGATTAAATCAATGAAGC-GA
66 GAGAAGTGGACCAAATCCGCCTTCCTAATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCTG-
* *
23762259 TCATCTTTTTGATGAGATACAGAGAAGTAGACCAAATCAATGATGCGAAGCTCAATATGAATGAG
130 TCATCTTTTTAATGAGATACAGAGAAATAGACCAAATCAATGATGCGAAGCTCAATATGAATGAG
23762324 ACTTCAAACCCTAT
195 ACTTCAAACCCTAT
* * *
23762338 CTTCTTGATGAGATATAGAGAAGCGGGTCAAAGCAATAAAACGACCATCTTCCTGATGAGATACA
1 CTTCTTGATGAGATACAGAGAAGCGGATCAAAGCAATAAAACGACCATCTTCCTAATGAGATACA
* * ** *
23762403 GAGAAGTGGACCAAATCTGCCTTCTTGGTGAGATACAAAGAAGTGGATCGAAGCAATAAAGCTGT
66 GAGAAGTGGACCAAATCCGCCTTCCTAATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCTGT
*
23762468 CATCTTTTTAATGAGATACAGAGAAATGGACCAAATC
131 CATCTTTTTAATGAGATACAGAGAAATAGACCAAATC
23762505 TGCCTTCCTG
Statistics
Matches: 145, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
208 144 0.99
209 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (208 bp):
CTTCTTGATGAGATACAGAGAAGCGGATCAAAGCAATAAAACGACCATCTTCCTAATGAGATACA
GAGAAGTGGACCAAATCCGCCTTCCTAATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCTGT
CATCTTTTTAATGAGATACAGAGAAATAGACCAAATCAATGATGCGAAGCTCAATATGAATGAGA
CTTCAAACCCTAT
Found at i:23762577 original size:85 final size:85
Alignment explanation
Indices: 23762338--23762570 Score: 263
Period size: 85 Copynumber: 2.7 Consensus size: 85
23762328 CAAACCCTAT
* * * * * * * *
23762338 CTTCTTGATGAGATATAGAGAAGCGGGTCAAAGCAATAAAAC-GACCATCTTCCTGATGAGATAC
1 CTTCCTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCTG-TCATCTTCATGATGAGATAC
*
23762402 AGAGAAGTGGACCAAATCTGC
65 AGAGAAATGGACCAAATCTGC
* * * ** *
23762423 CTTCTTGGTGAGATACAAAGAAGTGGATCGAAGCAATAAAGCTGTCATCTTTTTAATGAGATACA
1 CTTCCTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCTGTCATCTTCATGATGAGATACA
23762488 GAGAAATGGACCAAATCTGC
66 GAGAAATGGACCAAATCTGC
* * * *
23762508 CTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAG-TGGTCATCTTCATGATGAGATA
1 CTTCCTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCT-GTCATCTTCATGATGAGATA
23762571 TTGAGAAGTA
Statistics
Matches: 124, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
84 1 0.01
85 122 0.98
86 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (85 bp):
CTTCCTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAGCTGTCATCTTCATGATGAGATACA
GAGAAATGGACCAAATCTGC
Found at i:23762645 original size:208 final size:209
Alignment explanation
Indices: 23762424--23763005 Score: 690
Period size: 208 Copynumber: 2.8 Consensus size: 209
23762414 CAAATCTGCC
* * * *
23762424 TTCTTGGTGAGATACAAAGAAGTGGATCGAAGCAATAAAGCTGTCATCTTTTTAATGAGATACAG
1 TTCTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCTGTCATCTTCTTAATGAGATACAG
* *
23762489 AGAAATGGACCAAATCTGCCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGTGGTC
66 AGAAGTGGACCAAATCTACCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGTGGTC
** * * * *
23762554 ATCTTCATGATGAGATATTGAGAAGTAGACCCAATCAATGAAGCAAAGCTCAATATGAATGATAC
131 ATCTTCATGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAACCTCAATACGAATGAGAC
**
23762619 TTCAAACCTTAT-T
196 TTCAAACCCCATCT
* * *
23762632 TTCTTGATGAGATACAAAGAAGTGGGTCAAAGAAATAAAG-TGGTCATCTTCTTGATGAGATGCA
1 TTCTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCT-GTCATCTTCTTAATGAGATACA
* * * * * *
23762696 GAGAAGTGAACCAAATCCACCTTCTTGATGAGATATAGAGAAGTGGATTAAATCAATGAAGCGAT
65 GAGAAGTGGACCAAATCTACCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGTGGT
* * **
23762761 CATCTTCCTGATGAGATACAGAGAAGTAGACCAAATTAATGAAGTGAACCTCAATACGAATGAGA
130 CATCTTCATGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAACCTCAATACGAATGAGA
23762826 CTTCAAACCCCATCT
195 CTTCAAACCCCATCT
* * * * * * * *
23762841 TTC-TAATAAGATACAGAGAAGTGGGTCAAACCAATAAAGC-GACCATCTTCCTAATAAGATATA
1 TTCTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCTG-TCATCTTCTTAATGAGATACA
* * * *
23762904 GAGAAGTGGACCAAAT-TCACCTTCCTGATAAGATACAGAGAAGTGGATCGAAGT-AATAAAGTG
65 GAGAAGTGGACCAAATCT-ACCTTCCTGATGAGATACAGAGAAGTGGAT-TAAATCAATGAAGTG
* * * * *
23762967 GTCATCTTCCTAATAAGATACAGAGAAGTGGACGAAATC
128 GTCATCTTCATGATGAGATACAGAGAAGTAGACCAAATC
23763006 CGCCTTCTTG
Statistics
Matches: 315, Mismatches: 53, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
207 2 0.01
208 306 0.97
209 7 0.02
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (209 bp):
TTCTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCTGTCATCTTCTTAATGAGATACAG
AGAAGTGGACCAAATCTACCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGTGGTC
ATCTTCATGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAACCTCAATACGAATGAGAC
TTCAAACCCCATCT
Found at i:23762775 original size:85 final size:85
Alignment explanation
Indices: 23762632--23762796 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 85
23762622 AAACCTTATT
* * * * *
23762632 TTCTTGATGAGATACAAAGAAGTGGGTCAAAGAAATAAAGTGGTCATCTTCTTGATGAGATGCAG
1 TTCTTGATGAGATACAAAGAAGTGGATCAAAGAAATAAAGCGATCATCTTCCTGATGAGATACAG
23762697 AGAAGT-GAACCAAATCCACC
66 AGAAGTAG-ACCAAATCCACC
* * * ** *
23762717 TTCTTGATGAGATATAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAG
1 TTCTTGATGAGATACAAAGAAGTGGATCAAAGAAATAAAGCGATCATCTTCCTGATGAGATACAG
23762782 AGAAGTAGACCAAAT
66 AGAAGTAGACCAAAT
23762797 TAATGAAGTG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 67 0.99
86 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (85 bp):
TTCTTGATGAGATACAAAGAAGTGGATCAAAGAAATAAAGCGATCATCTTCCTGATGAGATACAG
AGAAGTAGACCAAATCCACC
Found at i:23762940 original size:293 final size:294
Alignment explanation
Indices: 23762636--23763299 Score: 873
Period size: 293 Copynumber: 2.3 Consensus size: 294
23762626 CTTATTTTCT
* * * *
23762636 TGATGAGATACAAAGAAGTGGGTCAAAGAAATAAAGTGGTCATCTTCTTGATGAGATGCAGAGAA
1 TGATGAGATACAGAGAAGTGGATCAAAGAAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAA
* *
23762701 GTGAACCAAATCCACCTTCTTGATGAGATATAGAGAAGTGGATTAAATCAATGAAGCGATCATCT
66 GTGAACCAAATCCACCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCGATCATCT
* * * * ** *
23762766 TCCTGATGAGATACAGAGAAGTAGACCAAATTAATGAAGTGAACCTCAATACGAATGAGACTTCA
131 TCCTAATAAGATACAGAGAAGTAGACCAAATCAATAAAGCAAACCTCAATACGAATGACACTTCA
* *
23762831 AACC-CCATCTTTCTAATAAGATACAGAGAAGTGGGTCAAACCAATAAAGCGACCATCTTCCTAA
196 AACCTCCATCTTTCTAATAAGATACAGAGAAGTGGGTAAAACAAATAAAGCGACCATCTTCCTAA
*
23762895 TAAGATATAGAGAAGTGGACCAAATTCACCTTCC
261 TAAGATACAGAGAAGTGGACCAAATTCACCTTCC
* * * * *
23762929 TGATAAGATACAGAGAAGTGGATCGAAGTAATAAAGTGGTCATCTTCCTAATAAGATACAGAGAA
1 TGATGAGATACAGAGAAGTGGATCAAAGAAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAA
* * * * *
23762994 GTGGACGAAATCCGCCTTCTTGATGAGATACAGAGGAGTGGATTAAAACAATTAAGCGATCATCT
66 GTGAACCAAATCCACCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCGATCATCT
* * * ** *
23763059 TCCTAATAAGATATAGAGAAGTAGACCAAATCAATAAAGCAAAGCTTAATGTGAGTGACACTTCA
131 TCCTAATAAGATACAGAGAAGTAGACCAAATCAATAAAGCAAACCTCAATACGAATGACACTTCA
* * * ** *
23763124 AACCTCCATCTTTCTGATGAGATACAGAGAAGTGGGTAAAAGAAATAAAGCGGTCATCTTCCTGA
196 AACCTCCATCTTTCTAATAAGATACAGAGAAGTGGGTAAAACAAATAAAGCGACCATCTTCCTAA
* **
23763189 TGAGATACAGAGAAGTGGACCAAATTTGCCTTCC
261 TAAGATACAGAGAAGTGGACCAAATTCACCTTCC
* * ** * * *
23763223 TGATGAGATACAGAGAAGTAGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAAAGAA
1 TGATGAGATACAGAGAAGTGGATCAAAGAAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAA
23763288 GT-AGACCAAATC
66 GTGA-ACCAAATC
23763300 AATGAAGCAA
Statistics
Matches: 315, Mismatches: 54, Indels: 3
0.85 0.15 0.01
Matches are distributed among these distances:
293 170 0.54
294 145 0.46
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (294 bp):
TGATGAGATACAGAGAAGTGGATCAAAGAAATAAAGTGGTCATCTTCCTGATGAGATACAGAGAA
GTGAACCAAATCCACCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAATGAAGCGATCATCT
TCCTAATAAGATACAGAGAAGTAGACCAAATCAATAAAGCAAACCTCAATACGAATGACACTTCA
AACCTCCATCTTTCTAATAAGATACAGAGAAGTGGGTAAAACAAATAAAGCGACCATCTTCCTAA
TAAGATACAGAGAAGTGGACCAAATTCACCTTCC
Found at i:23762992 original size:85 final size:85
Alignment explanation
Indices: 23762846--23763090 Score: 328
Period size: 85 Copynumber: 2.9 Consensus size: 85
23762836 CATCTTTCTA
* * *
23762846 ATAAGATACAGAGAAGTGGGTCAAACCAATAAAGCGACCATCTTCCTAATAAGATATAGAGAAGT
1 ATAAGATACAGAGAAGTGGATCAAAACAATAAAGCGATCATCTTCCTAATAAGATATAGAGAAGT
*
23762911 GGACCAAATTCACCTTCCTG
66 GGACCAAATCCACCTTCCTG
* ** * * *
23762931 ATAAGATACAGAGAAGTGGATCGAAGTAATAAAGTGGTCATCTTCCTAATAAGATACAGAGAAGT
1 ATAAGATACAGAGAAGTGGATCAAAACAATAAAGCGATCATCTTCCTAATAAGATATAGAGAAGT
* * *
23762996 GGACGAAATCCGCCTTCTTG
66 GGACCAAATCCACCTTCCTG
* * * *
23763016 ATGAGATACAGAGGAGTGGATTAAAACAATTAAGCGATCATCTTCCTAATAAGATATAGAGAAGT
1 ATAAGATACAGAGAAGTGGATCAAAACAATAAAGCGATCATCTTCCTAATAAGATATAGAGAAGT
*
23763081 AGACCAAATC
66 GGACCAAATC
23763091 AATAAAGCAA
Statistics
Matches: 136, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 136 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.22
Consensus pattern (85 bp):
ATAAGATACAGAGAAGTGGATCAAAACAATAAAGCGATCATCTTCCTAATAAGATATAGAGAAGT
GGACCAAATCCACCTTCCTG
Found at i:23763280 original size:85 final size:85
Alignment explanation
Indices: 23763137--23763298 Score: 252
Period size: 85 Copynumber: 1.9 Consensus size: 85
23763127 CTCCATCTTT
* * *
23763137 CTGATGAGATACAGAGAAGTGGGTAAAAGAAATAAAGCGGTCATCTTCCTGATGAGATACAGAGA
1 CTGATGAGATACAGAGAAGTAGATAAAAGAAATAAAGCGGTCATCTTCCTGATGAGATACAAAGA
*
23763202 AGTGGACCAAATTTGCCTTC
66 AGTAGACCAAATTTGCCTTC
* ** *
23763222 CTGATGAGATACAGAGAAGTAGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAAAGA
1 CTGATGAGATACAGAGAAGTAGATAAAAGAAATAAAGCGGTCATCTTCCTGATGAGATACAAAGA
23763287 AGTAGACCAAAT
66 AGTAGACCAAAT
23763299 CAATGAAGCA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (85 bp):
CTGATGAGATACAGAGAAGTAGATAAAAGAAATAAAGCGGTCATCTTCCTGATGAGATACAAAGA
AGTAGACCAAATTTGCCTTC
Found at i:23763498 original size:48 final size:48
Alignment explanation
Indices: 23763427--23763564 Score: 204
Period size: 48 Copynumber: 2.9 Consensus size: 48
23763417 CCAAATTCGC
* ** *
23763427 CTTCCTGATGAGATACAGAGAAGTTGATTAAATCAATGAAGTGATCAT
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGATCAT
* * * *
23763475 CTTCCTGATGAGATAAAAAGAAGTAGACCAAATCAATGATGCGGTCAT
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGATCAT
23763523 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGC
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGC
23763565 AAAGCTCAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (48 bp):
CTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCGATCAT
Found at i:23763512 original size:209 final size:209
Alignment explanation
Indices: 23762924--23763513 Score: 831
Period size: 209 Copynumber: 2.8 Consensus size: 209
23762914 CCAAATTCAC
* * * * * * * *
23762924 CTTCCTGATAAGATACAGAGAAGTGGATCGAAGTAATAAAGTGGTCATCTTCCTAATAAGATACA
1 CTTCTTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGGTCATCTTCCTGATGAGATACA
* * * * * * *
23762989 GAGAAGTGGACGAAATCCGCCTTCTTGATGAGATACAGAGGAGTGGATTAAAACAATTAAGCGAT
66 GAGAAGTGGACCAAATTCGCCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAGCGAT
* * * * * * * *
23763054 CATCTTCCTAATAAGATATAGAGAAGTAGACCAAATCAATAAAGCAAAGCTTAATGTGAGTGACA
131 CATCTTCCTGATGAGATAAAAAGAAGTAGACCAAATCAATGAAGCAAAGCTCAAAGTGAGTGAAA
*
23763119 CTTCAAACCTCCAT
196 CTTCAAACCCCCAT
*
23763133 CTT-TCTGATGAGATACAGAGAAGTGGGTAAAAGAAATAAAGCGGTCATCTTCCTGATGAGATAC
1 CTTCT-TGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGGTCATCTTCCTGATGAGATAC
* *
23763197 AGAGAAGTGGACCAAATTTGCCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAGCGG
65 AGAGAAGTGGACCAAATTCGCCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAGCGA
*
23763262 TCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCAAAGCTCAAAGTGAGTGAA
130 TCATCTTCCTGATGAGATAAAAAGAAGTAGACCAAATCAATGAAGCAAAGCTCAAAGTGAGTGAA
23763327 ACTTCAAACCCCCAT
195 ACTTCAAACCCCCAT
** * * *
23763342 CTTCTTGATGAGATACAGAGAAAAGGGTCAAAGCAATAAAGCGATCATCTTCTTGATGAGATACA
1 CTTCTTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGGTCATCTTCCTGATGAGATACA
* * * *
23763407 GAGAACTGTACCAAATTCGCCTTCCTGATGAGATACAGAGAAGTTGATTAAATCAATGAAGTGAT
66 GAGAAGTGGACCAAATTCGCCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAGCGAT
23763472 CATCTTCCTGATGAGATAAAAAGAAGTAGACCAAATCAATGA
131 CATCTTCCTGATGAGATAAAAAGAAGTAGACCAAATCAATGA
23763514 TGCGGTCATC
Statistics
Matches: 339, Mismatches: 40, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
209 338 1.00
210 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (209 bp):
CTTCTTGATGAGATACAGAGAAGTGGGTCAAAGAAATAAAGCGGTCATCTTCCTGATGAGATACA
GAGAAGTGGACCAAATTCGCCTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAGCGAT
CATCTTCCTGATGAGATAAAAAGAAGTAGACCAAATCAATGAAGCAAAGCTCAAAGTGAGTGAAA
CTTCAAACCCCCAT
Found at i:23763697 original size:37 final size:37
Alignment explanation
Indices: 23763645--23763716 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
23763635 AAAGCGGTCA
*
23763645 TCTTCTTGATGAGATACAAAGAAGTGGATCAAATCCT
1 TCTTCCTGATGAGATACAAAGAAGTGGATCAAATCCT
* * * *
23763682 TCTTCCTGATTAGATATAGAGAAGTGGATTAAATC
1 TCTTCCTGATGAGATACAAAGAAGTGGATCAAATC
23763717 AAGGAAGCGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (37 bp):
TCTTCCTGATGAGATACAAAGAAGTGGATCAAATCCT
Found at i:23763761 original size:256 final size:257
Alignment explanation
Indices: 23763218--23763761 Score: 822
Period size: 256 Copynumber: 2.1 Consensus size: 257
23763208 CCAAATTTGC
* **
23763218 CTTCCTGATGAGATACAGAGAAGTAGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACA
1 CTTCCTGATGAGATAAAGAGAAGTAGACCAAATCAATGAAGCGGTCATCTTCCTGATGAGATACA
*
23763283 AAGAAGTAGACCAAATCAATGAAGCAAAGCTCAAAGTGAGTGAAACTTCAAACCCCCATCTTCTT
66 AAGAAGTAGACCAAATCAATGAAGCAAAGCTCAAAGTGAGTGAAACTTCAAACCCCCATCTTCCT
*
23763348 GATGAGATACAGAGAAAAGGGTCAAAGCAATAAAGCGATCATCTTCTTGATGAGATACAGAGAAC
131 GATGAGATACAGAGAAAAGGGTCAAAGCAATAAAGCGATCATCTTCTTGATGAGATACAAAGAAC
* * * * *
23763413 TGTACCAAATTCGCCTTCCTGATGAGATACAGAGAAGTTGATTAAATCAATGAAGTGATCAT
196 TGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAAGGAAGCGATCAT
* *
23763475 CTTCCTGATGAGATAAAAAGAAGTAGACCAAATCAATGATGCGGTCATCTTCCTGATGAGATACA
1 CTTCCTGATGAGATAAAGAGAAGTAGACCAAATCAATGAAGCGGTCATCTTCCTGATGAGATACA
* *
23763540 GAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTTCAAA-CCCCATCTTCCT
66 AAGAAGTAGACCAAATCAATGAAGCAAAGCTCAAAGTGAGTGAAACTTCAAACCCCCATCTTCCT
* *
23763604 GATGAGATACAGAGAAGTA-GGTCAAAGCAATAAAGCGGTCATCTTCTTGATGAGATACAAAGAA
131 GATGAGATACAGAGAA-AAGGGTCAAAGCAATAAAGCGATCATCTTCTTGATGAGATACAAAGAA
* * ** * * * *
23763668 GTGGATCAAATCCTTCTTCCTGATTAGATATAGAGAAGTGGATTAAATCAAGGAAGCGGTCGT
195 CTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAAGGAAGCGATCAT
* * *
23763731 CTTCCTGAGGAGATATAGAGAAGAAGACCAA
1 CTTCCTGATGAGATAAAGAGAAGTAGACCAA
23763762 TGAAGCGAGA
Statistics
Matches: 258, Mismatches: 28, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
256 147 0.57
257 111 0.43
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (257 bp):
CTTCCTGATGAGATAAAGAGAAGTAGACCAAATCAATGAAGCGGTCATCTTCCTGATGAGATACA
AAGAAGTAGACCAAATCAATGAAGCAAAGCTCAAAGTGAGTGAAACTTCAAACCCCCATCTTCCT
GATGAGATACAGAGAAAAGGGTCAAAGCAATAAAGCGATCATCTTCTTGATGAGATACAAAGAAC
TGGACCAAATCCGCCTTCCTGATGAGATACAGAGAAGTGGATTAAATCAAGGAAGCGATCAT
Found at i:23764299 original size:43 final size:43
Alignment explanation
Indices: 23764212--23764299 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 43
23764202 TTAGTAAACA
* * *
23764212 AATTTTAAATTTAAATTTATTTTAAATTTAAAATGTCGAATAC
1 AATTTTAAATTTAAATTTATTTTAAATTTAAAAGGCCCAATAC
23764255 AATTTTAAATTTAAATTTA-TTTAAATTTAAAAGGCCCAATTAC
1 AATTTTAAATTTAAATTTATTTTAAATTTAAAAGGCCCAA-TAC
23764298 AA
1 AA
23764300 ACCCAACAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 17 0.41
43 24 0.59
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (43 bp):
AATTTTAAATTTAAATTTATTTTAAATTTAAAAGGCCCAATAC
Found at i:23765942 original size:58 final size:59
Alignment explanation
Indices: 23765862--23766009 Score: 154
Period size: 59 Copynumber: 2.5 Consensus size: 59
23765852 CAATATTACA
* * *
23765862 TTTAGCCCCTAAACTTTACCAAAATTACATGTTCACCCCCAAACTTTTTC-AAATTACAT
1 TTTAACCCCTAAACTTT-CCAAAATTACATGTTCACCCCCAAACTTTCTCAAAATCACAT
* * * * * * * *
23765921 TTTGATCCTTAAAGTTTCCAAAATCACATTTTGACCTCCAAACTTTCTCAAAATCACAT
1 TTTAACCCCTAAACTTTCCAAAATTACATGTTCACCCCCAAACTTTCTCAAAATCACAT
* *
23765980 TTTAACCCCTAAATTTTTCTAAAATTACAT
1 TTTAACCCCTAAA-CTTTCCAAAATTACAT
23766010 TTTAACCTCA
Statistics
Matches: 70, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
58 27 0.39
59 30 0.43
60 13 0.19
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (59 bp):
TTTAACCCCTAAACTTTCCAAAATTACATGTTCACCCCCAAACTTTCTCAAAATCACAT
Found at i:23766013 original size:30 final size:30
Alignment explanation
Indices: 23765794--23766016 Score: 163
Period size: 29 Copynumber: 7.6 Consensus size: 30
23765784 GTTTCATTTA
* * **
23765794 AAAATTACATTTTGA-CCCTCAATTTTTTT
1 AAAATTACATTTTAACCCCTAAATTTTTCC
* * *
23765823 AAAATTGCATTTTAACCCTTAAAATTTTCC
1 AAAATTACATTTTAACCCCTAAATTTTTCC
* * * *
23765853 AATATTACA-TTTAGCCCCTAAACTTTACC
1 AAAATTACATTTTAACCCCTAAATTTTTCC
* * *
23765882 AAAATTACATGTTCACCCCCAAACTTTTT-C
1 AAAATTACATTTTAACCCCTAAA-TTTTTCC
* * * *
23765912 -AAATTACATTTTGATCCTTAAA-GTTTCC
1 AAAATTACATTTTAACCCCTAAATTTTTCC
* * *
23765940 AAAATCACATTTTGACCTCC-AAA-CTTTCTC
1 AAAATTACATTTTAACC-CCTAAATTTTTC-C
* *
23765970 AAAATCACATTTTAACCCCTAAATTTTTCT
1 AAAATTACATTTTAACCCCTAAATTTTTCC
23766000 AAAATTACATTTTAACC
1 AAAATTACATTTTAACC
23766017 TCAAAGTCTC
Statistics
Matches: 151, Mismatches: 34, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
27 3 0.02
28 1 0.01
29 77 0.51
30 63 0.42
31 7 0.05
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAATTTTTCC
Found at i:23766023 original size:88 final size:87
Alignment explanation
Indices: 23765794--23766023 Score: 227
Period size: 88 Copynumber: 2.6 Consensus size: 87
23765784 GTTTCATTTA
* * * * * *
23765794 AAAATTACATTTTGA-CCCTCAATTTTTTTAAAATTGCATTTTAACCCTTAAAATTTTCCAATAT
1 AAAATTACATTTTAACCCCTAAATTTTTCTAAAATTACATTTTAA-CC-TAAAAGTTTCCAAAAT
*
23765858 TACATTTAGCCCCTAAACTTTACC
64 CACATTTAGCCCCTAAACTTTACC
* * * * *
23765882 AAAATTACATGTTCACCCCCAAACTTTTTC--AAATTACATTTTGATCCTTAAAGTTTCCAAAAT
1 AAAATTACATTTTAACCCCTAAA-TTTTTCTAAAATTACATTTT-AACCTAAAAGTTTCCAAAAT
*
23765945 CACATTTTGACCTCC-AAACTTT-CTC
64 CACATTTAG-CC-CCTAAACTTTAC-C
* *
23765970 AAAATCACATTTTAACCCCTAAATTTTTCTAAAATTACATTTTAACCTCAAAGT
1 AAAATTACATTTTAACCCCTAAATTTTTCTAAAATTACATTTTAACCTAAAAGT
23766024 CTCTGAAACT
Statistics
Matches: 116, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
87 27 0.23
88 64 0.55
89 20 0.17
90 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.38
Consensus pattern (87 bp):
AAAATTACATTTTAACCCCTAAATTTTTCTAAAATTACATTTTAACCTAAAAGTTTCCAAAATCA
CATTTAGCCCCTAAACTTTACC
Found at i:23767587 original size:23 final size:23
Alignment explanation
Indices: 23767557--23767614 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 23
23767547 CTTTTTTAGC
*
23767557 ATCAAAATCAGTTTGGTAACA-AT
1 ATCAAAATCAGTTCGGTAA-ATAT
23767580 ATCAAAATCAGTTCGGTAAATAT
1 ATCAAAATCAGTTCGGTAAATAT
23767603 ATCAAAATCAGT
1 ATCAAAATCAGT
23767615 ATTGTAATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
22 1 0.03
23 32 0.97
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (23 bp):
ATCAAAATCAGTTCGGTAAATAT
Found at i:23767621 original size:23 final size:22
Alignment explanation
Indices: 23767557--23767621 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 22
23767547 CTTTTTTAGC
23767557 ATCAAAATCAGTTTGGTAACAAT
1 ATCAAAATCAGTTT-GTAACAAT
*
23767580 ATCAAAATCAGTTCGGTAA-ATAT
1 ATCAAAATCAGTT-TGTAACA-AT
23767603 ATCAAAATCAGTATTGTAA
1 ATCAAAATCAGT-TTGTAA
23767622 TAGTCTTAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
22 1 0.03
23 35 0.95
24 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (22 bp):
ATCAAAATCAGTTTGTAACAAT
Found at i:23768786 original size:17 final size:15
Alignment explanation
Indices: 23768758--23768803 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
23768748 CACGTCAGCA
*
23768758 AAAAAAATTTAAAGTT
1 AAAAAAA-TTAAAATT
23768774 AAAACATAATTAAAATT
1 AAAA-A-AATTAAAATT
23768791 AAAAAAATTAAAA
1 AAAAAAATTAAAA
23768804 CACCCTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 8 0.30
16 5 0.19
17 12 0.44
18 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAAAAATTAAAATT
Done.