Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 195 of 211
Found at i:60216094 original size:12 final size:12
Alignment explanation
Indices: 60216077--60216101 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60216067 ATTTATAATT
60216077 TATATATACATA
1 TATATATACATA
60216089 TATATATACATA
1 TATATATACATA
60216101 T
1 T
60216102 TTTTAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATATACATA
Found at i:60216443 original size:20 final size:20
Alignment explanation
Indices: 60216411--60216448 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60216401 TTTTTACTTA
60216411 CATTATCATAATTGTTATTC
1 CATTATCATAATTGTTATTC
*
60216431 CATTA-CATCAATTTTTAT
1 CATTATCAT-AATTGTTAT
60216449 CCAGATTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.50
Consensus pattern (20 bp):
CATTATCATAATTGTTATTC
Found at i:60219169 original size:2 final size:2
Alignment explanation
Indices: 60219162--60219194 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
60219152 AATGCCTTAA
60219162 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60219195 AACCCAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60229022 original size:24 final size:23
Alignment explanation
Indices: 60228989--60229046 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
60228979 ACACTAAATT
60228989 AATT-TAAAATTAGAAATTTAT-A
1 AATTATAAAATTAGAAA-TTATGA
60229011 AATTTATAAAATTAGAAATTATGA
1 AA-TTATAAAATTAGAAATTATGA
*
60229035 AATTATGAAATT
1 AATTATAAAATT
60229047 TTTTAAAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 2 0.06
23 15 0.47
24 15 0.47
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (23 bp):
AATTATAAAATTAGAAATTATGA
Found at i:60229029 original size:16 final size:17
Alignment explanation
Indices: 60229006--60229047 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
60228996 AATTAGAAAT
60229006 TTAT-AAATTTATAAAA
1 TTATGAAATTTATAAAA
*
60229022 TTA-GAAA-TTATGAAA
1 TTATGAAATTTATAAAA
60229037 TTATGAAATTT
1 TTATGAAATTT
60229048 TTTAAAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 10 0.45
16 10 0.45
17 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (17 bp):
TTATGAAATTTATAAAA
Found at i:60229255 original size:281 final size:279
Alignment explanation
Indices: 60228741--60229952 Score: 1692
Period size: 281 Copynumber: 4.3 Consensus size: 279
60228731 AAAGTAAAAA
* * *
60228741 TATAAAATTAGAAATTAT-AAATTTTTTTAAAGTAATAAAATGTGGAGAAAAAAATACAAAGAAA
1 TATAAAATTAGAAATTATGATA-TTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAA
* *
60228805 TGACCGAGGTAAGAGT-TTTTACAAAAATTTTTAAAAATTCAGAAATAATTAATACAAGTATTTG
65 TGACCGAGGTAAGAGTGTTTTAC-AAAATTTTAAAAAATTCAGAAATAATTAATACAAATATTTG
60228869 AAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGT
129 AAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGT
* *
60228934 AATAAAATTCGGGAAAATAATACGAGCAACTGGCGGGAATAA-TTTACACTAAATTAATTTAAAA
194 AATAAAATTCGGGAAAATAATACAAGCAAATGGCGGGAATAATTTTACACTAAATTAATTTAAAA
* * * *
60228998 TTAGAAATTTA-TAAATTTATAAAAT
259 --A-ACA--CACTAAATTAATAAATT
* * *
60229023 TA-GAAATTATGAAATTATGAAATTTTTTAAAGTAATAAAATGCGAAG-AAAAAATACGAAGAAA
1 TATAAAATTA-GAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAA
60229086 T-AGCCGAGGTAAGAGTGTTTTACAAAATTTTAAAAAATTCAGAAATAATTAATACAAATATTTG
65 TGA-CCGAGGTAAGAGTGTTTTACAAAATTTTAAAAAATTCAGAAATAATTAATACAAATATTTG
60229150 AAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGT
129 AAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGT
* *
60229215 AATAAAATTCAGGAAAATAATACAAGTAAATGGCGGGAATAAGGGTTTTTTTACACTAAATTAAT
194 AATAAAATTCGGGAAAATAATACAAGCAAATGGCGGGAATAA------TTTTACACTAAATTAAT
60229280 TT-AAAAACACACTAAATTAATAAATT
253 TTAAAAAACACACTAAATTAATAAATT
* *
60229306 TATAAAATTATAAATTATGATA-TTTTTAAAGTAATAAAATGCAGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
* **
60229370 GACCGAGGTAAGAGT-TTTTAAAAAAAATT-AAAAATTCAGAAATAATTAATACAAATATTTGAA
66 GACCGAGGTAAGAGTGTTTTACAAAATTTTAAAAAATTCAGAAATAATTAATACAAATATTTGAA
* *
60229433 ATAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAACTATTTTATTGAAAGTAA
131 ACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTAA
60229498 TAAAATTCGGGAAAATAATACAAGCAAATGGCGGGAATAAGGATTTTTTTTACACTAAATTAATT
196 TAAAATTCGGGAAAATAATACAAGCAAATGGCGGGAAT-A--A----TTTTACACTAAATTAATT
60229563 TAAAAAACACACTAAATTAATAAATT
254 TAAAAAACACACTAAATTAATAAATT
*
60229589 TATAAAATTAGAAACTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
* **
60229654 GGCCGAGGTAAGAGTGTTTTACAAAATTTTTAAAAAATTTTGAAATAATTAATACAAATATTTGA
66 GACCGAGGTAAGAGTGTTTTACAAAA-TTTTAAAAAATTCAGAAATAATTAATACAAATATTTGA
* *
60229719 AACAAAATGTACT---A-AA-AT--AAT-ATAAAATAAGAAAATAAAATTATTTTATTCAAAGTA
130 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
** * *
60229776 ATAAAATTCGAAAAAATAATACGAGCAAATAGCGGGAATAAGGGTTTTTTTTACACTAAATTAAT
195 ATAAAATTCGGGAAAATAATACAAGCAAATGGCGGGAATAA-------TTTTACACTAAATTAAT
60229841 TTAAAAAACACACTAAATTAATAAATT
253 TTAAAAAACACACTAAATTAATAAATT
*
60229868 TATAAAATTAGAAATTATCATATTTTTT-AAGTAATAAAATGCGGAG-AAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
*
60229931 GATCGAGGTAAGAGTGTTTTAC
66 GACCGAGGTAAGAGTGTTTTAC
60229953 TAACTTTTTT
Statistics
Matches: 856, Mismatches: 48, Indels: 57
0.89 0.05 0.06
Matches are distributed among these distances:
276 1 0.00
277 37 0.04
278 19 0.02
279 142 0.17
280 4 0.00
281 310 0.36
282 98 0.11
283 103 0.12
284 66 0.08
285 10 0.01
286 2 0.00
287 46 0.05
288 18 0.02
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (279 bp):
TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
GACCGAGGTAAGAGTGTTTTACAAAATTTTAAAAAATTCAGAAATAATTAATACAAATATTTGAA
ACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTAA
TAAAATTCGGGAAAATAATACAAGCAAATGGCGGGAATAATTTTACACTAAATTAATTTAAAAAA
CACACTAAATTAATAAATT
Found at i:60232197 original size:11 final size:11
Alignment explanation
Indices: 60232181--60232207 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
60232171 TTTATAACTT
60232181 AATTTGGATAC
1 AATTTGGATAC
60232192 AATTTGGATAC
1 AATTTGGATAC
60232203 AATTT
1 AATTT
60232208 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:60234495 original size:18 final size:18
Alignment explanation
Indices: 60234472--60234514 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
60234462 CCCAATGATT
60234472 GCCACCACCTTCTTCTTC
1 GCCACCACCTTCTTCTTC
*
60234490 GCCACCACTTTCTTCTTC
1 GCCACCACCTTCTTCTTC
*
60234508 ACCACCA
1 GCCACCA
60234515 ACCATATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.49, G:0.05, T:0.30
Consensus pattern (18 bp):
GCCACCACCTTCTTCTTC
Found at i:60235213 original size:61 final size:63
Alignment explanation
Indices: 60235159--60235281 Score: 176
Period size: 64 Copynumber: 2.0 Consensus size: 63
60235149 TTTATATTCA
*
60235159 AAATTATACTAACTAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTTACTAACTAG
1 AAATTATACTAAATAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTTACTAACTAG
** * **
60235222 TTTATTTTGGTAAATAAAAATAATAACTAACCATAATAATAATACTAG-TTTTTTACTAAC
1 -AAATTATACTAAATAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTTACTAAC
60235282 AATAATACTA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
63 12 0.23
64 41 0.77
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.37
Consensus pattern (63 bp):
AAATTATACTAAATAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTTACTAACTAG
Found at i:60235603 original size:27 final size:27
Alignment explanation
Indices: 60235564--60235649 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 27
60235554 AACACGACTA
*
60235564 GTGCCGCCAATGGGAATGGCACCATCG
1 GTGCCGCCCATGGGAATGGCACCATCG
* * *
60235591 GTGCCGCCCATGGGAATGACAGCATCA
1 GTGCCGCCCATGGGAATGGCACCATCG
* * * *
60235618 GTGCTGCCCATGGGAAGGGCACCTTTG
1 GTGCCGCCCATGGGAATGGCACCATCG
60235645 GTGCC
1 GTGCC
60235650 ACCAATCAGA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.20, C:0.29, G:0.34, T:0.17
Consensus pattern (27 bp):
GTGCCGCCCATGGGAATGGCACCATCG
Found at i:60236488 original size:21 final size:18
Alignment explanation
Indices: 60236448--60236490 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
60236438 TTTTTATAAT
*
60236448 ATTTAATATTTTTTCATA
1 ATTTAATATTTCTTCATA
60236466 ATTTATATAATTTCTTCTATA
1 ATTTA-AT-ATTTCTTC-ATA
60236487 ATTT
1 ATTT
60236491 TCTAAAAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 2 0.10
20 7 0.33
21 7 0.33
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTAATATTTCTTCATA
Found at i:60241155 original size:16 final size:17
Alignment explanation
Indices: 60241125--60241156 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60241115 TTTTTTCTCT
60241125 TTTTATTTATTTTAGAA
1 TTTTATTTATTTTAGAA
60241142 TTTTATTT-TTTTAGA
1 TTTTATTTATTTTAGA
60241157 GATATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTATTTATTTTAGAA
Found at i:60241593 original size:20 final size:20
Alignment explanation
Indices: 60241552--60241593 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
60241542 TTATATATTC
* *
60241552 TTTTTTATTTGTTTTTTAAT
1 TTTTTTATTTGGTTTATAAT
*
60241572 TTTTTTATTTGGTTTATCAT
1 TTTTTTATTTGGTTTATAAT
60241592 TT
1 TT
60241594 GGTTATGGGC
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:0.14, C:0.02, G:0.07, T:0.76
Consensus pattern (20 bp):
TTTTTTATTTGGTTTATAAT
Found at i:60243971 original size:28 final size:28
Alignment explanation
Indices: 60243940--60243996 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
60243930 ATGCGTATAC
*
60243940 ATTTTATA-ATACATATACATTTTTCTAT
1 ATTTTATATATACACATACA-TTTTCTAT
*
60243968 ATTTTATATATATACATACATTTTCTAT
1 ATTTTATATATACACATACATTTTCTAT
60243996 A
1 A
60243997 ATATATGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTTTATATATACACATACATTTTCTAT
Found at i:60244007 original size:26 final size:28
Alignment explanation
Indices: 60243954--60244008 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 28
60243944 TATAATACAT
*
60243954 ATACATTTTTCTATATTTTATATATATAC
1 ATACATTTTTCTATA-TATATATATATAC
*
60243983 ATACA-TTTTCTATA-ATATATGTATAC
1 ATACATTTTTCTATATATATATATATAC
60244009 TTTTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.42
28 9 0.38
29 5 0.21
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (28 bp):
ATACATTTTTCTATATATATATATATAC
Found at i:60244059 original size:18 final size:17
Alignment explanation
Indices: 60244036--60244115 Score: 62
Period size: 16 Copynumber: 4.8 Consensus size: 17
60244026 AATATTATAA
60244036 ATATATACATATATTCTT
1 ATATATACATATATT-TT
*
60244054 ATATATACAT-T-TCATT
1 ATATATACATATAT-TTT
60244070 ATATAT--ATATATTTAT
1 ATATATACATATATTT-T
*
60244086 ATACATACATAT-TTTT
1 ATATATACATATATTTT
* *
60244102 ACACATACATATAT
1 ATATATACATATAT
60244116 ATATACATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
14 2 0.04
15 2 0.04
16 28 0.55
17 5 0.10
18 14 0.27
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATACATATATTTT
Found at i:60244097 original size:16 final size:16
Alignment explanation
Indices: 60244078--60244124 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
60244068 TTATATATAT
60244078 ATATTTATATACATAC
1 ATATTTATATACATAC
* *
60244094 ATATTTTTACACATAC
1 ATATTTATATACATAC
*
60244110 ATATATATATACATA
1 ATATTTATATACATA
60244125 TTTTCATAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATTTATATACATAC
Found at i:60244152 original size:13 final size:12
Alignment explanation
Indices: 60244134--60244172 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
60244124 ATTTTCATAG
60244134 TTTATTTATATA
1 TTTATTTATATA
*
60244146 TTATATTTATACA
1 TT-TATTTATATA
60244159 TTT-TTTATATA
1 TTTATTTATATA
60244170 TTT
1 TTT
60244173 TGTGAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.42
12 3 0.12
13 11 0.46
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTATTTATATA
Found at i:60246119 original size:87 final size:87
Alignment explanation
Indices: 60245973--60246147 Score: 287
Period size: 87 Copynumber: 2.0 Consensus size: 87
60245963 TGTTAGGATT
* * * *
60245973 ACGACTTTTGTAGTATGTAACATCATTCACAATAGTGTAATTCATAGCTAAACTAATGGGTAAAT
1 ACGACTTCTGTAATATATAACATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTAAAT
*
60246038 GATATCTTCTCATCGACATTAC
66 GATATATTCTCATCGACATTAC
* *
60246060 ACGACTTCTGTAATATATAGCATCATTCACAATAGTGAAATTCATAGCTAAATTAATGGGTAAAT
1 ACGACTTCTGTAATATATAACATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTAAAT
60246125 GATATATTCTCATCGACATTAC
66 GATATATTCTCATCGACATTAC
60246147 A
1 A
60246148 TGATAGATGG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (87 bp):
ACGACTTCTGTAATATATAACATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTAAAT
GATATATTCTCATCGACATTAC
Found at i:60248638 original size:11 final size:10
Alignment explanation
Indices: 60248586--60248650 Score: 62
Period size: 10 Copynumber: 6.3 Consensus size: 10
60248576 TAAATAAATT
*
60248586 ATTTTTTATA
1 ATTTTTAATA
60248596 ATTTTTATATA
1 ATTTTTA-ATA
60248607 TATATTTTAA-A
1 -AT-TTTTAATA
*
60248618 ATTTTGAATA
1 ATTTTTAATA
60248628 ACTTTTTAATA
1 A-TTTTTAATA
60248639 ATTTTTAA-A
1 ATTTTTAATA
60248648 ATT
1 ATT
60248651 ATATTTTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
9 9 0.19
10 17 0.36
11 13 0.28
12 3 0.06
13 5 0.11
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:60250176 original size:24 final size:25
Alignment explanation
Indices: 60250148--60250198 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
60250138 TTCGTAATAA
*
60250148 GACAACATTT-TAAAAA-TAATATAT
1 GACAA-ATTTCTAAAAACAAATATAT
60250172 GACAAATTTCTAAAAACAAATATAT
1 GACAAATTTCTAAAAACAAATATAT
60250197 GA
1 GA
60250199 TAATAAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 11 0.46
25 9 0.38
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (25 bp):
GACAAATTTCTAAAAACAAATATAT
Found at i:60250318 original size:4 final size:4
Alignment explanation
Indices: 60250296--60250335 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
60250286 TAAAATCATA
60250296 AAAT ATAAT -AAT AAAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT A-AAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAA
60250336 AGGTATAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 3 0.09
4 24 0.73
5 6 0.18
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:60251496 original size:110 final size:110
Alignment explanation
Indices: 60251303--60251509 Score: 414
Period size: 110 Copynumber: 1.9 Consensus size: 110
60251293 AAAAGAAAAA
60251303 TAAATCATTTTTCTCTGCCCTCTTTTCCTGCTTCTTTGTGTGCTGTGGGTTTTTGCAGGTGTACG
1 TAAATCATTTTTCTCTGCCCTCTTTTCCTGCTTCTTTGTGTGCTGTGGGTTTTTGCAGGTGTACG
60251368 AAGGCCGTACAGTGACATGGCATGGCGCAGAGACCAGATGTCACT
66 AAGGCCGTACAGTGACATGGCATGGCGCAGAGACCAGATGTCACT
60251413 TAAATCATTTTTCTCTGCCCTCTTTTCCTGCTTCTTTGTGTGCTGTGGGTTTTTGCAGGTGTACG
1 TAAATCATTTTTCTCTGCCCTCTTTTCCTGCTTCTTTGTGTGCTGTGGGTTTTTGCAGGTGTACG
60251478 AAGGCCGTACAGTGACATGGCATGGCGCAGAG
66 AAGGCCGTACAGTGACATGGCATGGCGCAGAG
60251510 TCGGTGGCGC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 97 1.00
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.35
Consensus pattern (110 bp):
TAAATCATTTTTCTCTGCCCTCTTTTCCTGCTTCTTTGTGTGCTGTGGGTTTTTGCAGGTGTACG
AAGGCCGTACAGTGACATGGCATGGCGCAGAGACCAGATGTCACT
Found at i:60255261 original size:7 final size:7
Alignment explanation
Indices: 60255251--60255277 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
60255241 TTATTTCTTT
60255251 ATTTCAA
1 ATTTCAA
60255258 ATTTCAA
1 ATTTCAA
60255265 ATTTCAA
1 ATTTCAA
60255272 ATTTCA
1 ATTTCA
60255278 CCTTTCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTTCAA
Found at i:60255449 original size:45 final size:45
Alignment explanation
Indices: 60255391--60255543 Score: 225
Period size: 45 Copynumber: 3.4 Consensus size: 45
60255381 CACCAATATA
* * *
60255391 CAGTAATCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAC
1 CAGTAA-CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* * *
60255437 CTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAGT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* *
60255482 CAGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCAAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
60255527 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
60255544 GTCGGCACAT
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 91 0.95
46 5 0.05
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
Found at i:60255486 original size:39 final size:39
Alignment explanation
Indices: 60255397--60255570 Score: 145
Period size: 45 Copynumber: 4.2 Consensus size: 39
60255387 TATACAGTAA
* *
60255397 TCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTG
1 TCAGTAACAGTAACAGTATTCGACACACAAAGTGCCG-A---G
*
60255440 TAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAG
1 T--CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAG
* *
60255481 TCAGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCAAA
1 TCAGTAACAGTAACAG------TATTCGACACACAAAGTGCCGAG
* * *
60255526 TCAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTGA-
1 TCAGTAACAGTAACAGTATTCGACACACAAAGTGCC-GAG
60255564 TCAGTAA
1 TCAGTAA
60255571 GCCGACAAAT
Statistics
Matches: 112, Mismatches: 10, Indels: 23
0.77 0.07 0.16
Matches are distributed among these distances:
38 14 0.12
39 24 0.21
41 2 0.02
43 1 0.01
44 1 0.01
45 70 0.62
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (39 bp):
TCAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAG
Found at i:60256941 original size:9 final size:9
Alignment explanation
Indices: 60256927--60256971 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
60256917 CATTTAAATA
60256927 AATAATTAT
1 AATAATTAT
60256936 AATAATTAT
1 AATAATTAT
60256945 AATAATTAT
1 AATAATTAT
60256954 -ATACA-TAT
1 AATA-ATTAT
60256962 AATAATTAT
1 AATAATTAT
60256971 A
1 A
60256972 TATATAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.21
9 26 0.79
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
AATAATTAT
Found at i:60259837 original size:15 final size:15
Alignment explanation
Indices: 60259817--60259868 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
60259807 ACTACAAAAC
60259817 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
60259832 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
60259851 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
60259866 ATT
1 ATT
60259869 AATATTGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:60259931 original size:16 final size:16
Alignment explanation
Indices: 60259900--60259936 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
60259890 ATGTGAATAA
60259900 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
60259916 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
60259932 TATTA
1 TATTA
60259937 AAATAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:60262616 original size:23 final size:23
Alignment explanation
Indices: 60262590--60262637 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
60262580 AAAAAAAAGG
60262590 TTTAAGTGCCAACTTGCTTCCAA
1 TTTAAGTGCCAACTTGCTTCCAA
60262613 TTTAAGTGCCAACTTGCTTCCAA
1 TTTAAGTGCCAACTTGCTTCCAA
60262636 TT
1 TT
60262638 AAAAAGTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (23 bp):
TTTAAGTGCCAACTTGCTTCCAA
Found at i:60262695 original size:29 final size:29
Alignment explanation
Indices: 60262663--60262722 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
60262653 TATTGCTCAT
* *
60262663 GACAAAAAAAAATT-TAGATATTAAAGTGA
1 GACAAAAAAAAATTGAAG-TACTAAAGTGA
60262692 GACAAAAAAAAATTGAAGTACTAAAGTGA
1 GACAAAAAAAAATTGAAGTACTAAAGTGA
60262721 GA
1 GA
60262723 AAATAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.58, C:0.05, G:0.17, T:0.20
Consensus pattern (29 bp):
GACAAAAAAAAATTGAAGTACTAAAGTGA
Found at i:60268133 original size:43 final size:43
Alignment explanation
Indices: 60268072--60268157 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
60268062 CAATTCAAGA
60268072 AAACCCATTTCTGTACACGCTTTACCAATCTTTGTCAGCCTGT
1 AAACCCATTTCTGTACACGCTTTACCAATCTTTGTCAGCCTGT
60268115 AAACCCATTTCTGTACACGCTTTACCAATCTTTGTCAGCCTGT
1 AAACCCATTTCTGTACACGCTTTACCAATCTTTGTCAGCCTGT
60268158 TTTTCTCCGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.35
Consensus pattern (43 bp):
AAACCCATTTCTGTACACGCTTTACCAATCTTTGTCAGCCTGT
Found at i:60277617 original size:29 final size:29
Alignment explanation
Indices: 60277585--60277655 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
60277575 ATTATATACA
60277585 TATAATAATTTTATAT-TTCAAAAAA-ATAG
1 TATAATAATTTTATATATT-AAAAAATA-AG
* *
60277614 TATAATAATTATATATATTAAAAAATAAT
1 TATAATAATTTTATATATTAAAAAATAAG
*
60277643 TTTAATAATTTTA
1 TATAATAATTTTA
60277656 AAATCATTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 33 0.92
30 3 0.08
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (29 bp):
TATAATAATTTTATATATTAAAAAATAAG
Found at i:60278954 original size:56 final size:56
Alignment explanation
Indices: 60278892--60279008 Score: 227
Period size: 56 Copynumber: 2.1 Consensus size: 56
60278882 ACACTCACAA
60278892 TATATTATTAATCTCTTTTGGTTAAATTCGTTCTTCCAATATGATCTTATTTTATC
1 TATATTATTAATCTCTTTTGGTTAAATTCGTTCTTCCAATATGATCTTATTTTATC
60278948 TATATTATTAATCTCTTTTGGTTAAATTCGTTCTTCCAATATGATCTTATTTTATC
1 TATATTATTAATCTCTTTTGGTTAAATTCGTTCTTCCAATATGATCTTATTTTATC
60279004 T-TATT
1 TATATT
60279009 GTAATCATTA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 4 0.07
56 57 0.93
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.55
Consensus pattern (56 bp):
TATATTATTAATCTCTTTTGGTTAAATTCGTTCTTCCAATATGATCTTATTTTATC
Found at i:60280341 original size:10 final size:10
Alignment explanation
Indices: 60280326--60280370 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
60280316 ATATTTTTTT
60280326 AAAAATTATA
1 AAAAATTATA
60280336 AAAAATT-TA
1 AAAAATTATA
*
60280345 AAAAATTCTA
1 AAAAATTATA
*
60280355 AAGAATATATA
1 AAAAAT-TATA
60280366 AAAAA
1 AAAAA
60280371 GTTAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
9 9 0.30
10 14 0.47
11 7 0.23
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:60280348 original size:19 final size:21
Alignment explanation
Indices: 60280326--60280370 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
60280316 ATATTTTTTT
*
60280326 AAAAATTATAAA-AA-ATTTA
1 AAAAATTATAAAGAATATATA
*
60280345 AAAAATTCTAAAGAATATATA
1 AAAAATTATAAAGAATATATA
60280366 AAAAA
1 AAAAA
60280371 GTTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 2 0.09
21 9 0.41
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAATTATAAAGAATATATA
Found at i:60280378 original size:28 final size:27
Alignment explanation
Indices: 60280325--60280385 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
60280315 TATATTTTTT
*
60280325 TAAAAATTATAAAAAATTTAAAAAATTC
1 TAAAAATTATAAAAAAGTT-AAAAATTC
*
60280353 TAAAGAATATATAAAAAAGTT-AAAATTT
1 TAAA-AAT-TATAAAAAAGTTAAAAATTC
60280381 TAAAA
1 TAAAA
60280386 TTTTGCTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 1 0.03
28 14 0.48
29 3 0.10
30 11 0.38
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (27 bp):
TAAAAATTATAAAAAAGTTAAAAATTC
Found at i:60283343 original size:5 final size:5
Alignment explanation
Indices: 60283335--60283379 Score: 69
Period size: 5 Copynumber: 9.6 Consensus size: 5
60283325 AGTTATACAT
60283335 ATATA ATATA ATATA ATATA ATAT- A-ATA ATATA AT-TA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
60283380 CTTATTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 2 0.05
4 6 0.16
5 29 0.78
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:60283355 original size:15 final size:15
Alignment explanation
Indices: 60283335--60283379 Score: 69
Period size: 13 Copynumber: 3.2 Consensus size: 15
60283325 AGTTATACAT
60283335 ATATAATATAATATA
1 ATATAATATAATATA
60283350 ATATAATAT-A-ATA
1 ATATAATATAATATA
60283363 ATATAAT-TAATATA
1 ATATAATATAATATA
60283377 ATA
1 ATA
60283380 CTTATTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.04
13 11 0.39
14 7 0.25
15 9 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATAATATAATATA
Found at i:60283366 original size:28 final size:28
Alignment explanation
Indices: 60283335--60283409 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 28
60283325 AGTTATACAT
60283335 ATATAATATAATATAATATAATATAATA
1 ATATAATATAATATAATATAATATAATA
* * *
60283363 ATATAAT-TAATATAATACTTATTTATTA
1 ATATAATATAATATAATA-TAATATAATA
60283391 AGTA-AATA-AATATAATATA
1 A-TATAATATAATATAATATA
60283410 TATTAACTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 11 0.28
28 27 0.68
29 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (28 bp):
ATATAATATAATATAATATAATATAATA
Found at i:60288429 original size:107 final size:107
Alignment explanation
Indices: 60288168--60288669 Score: 597
Period size: 107 Copynumber: 4.7 Consensus size: 107
60288158 ACATAAAATT
* * * * **
60288168 TTTTTTTTAAAATTGTACTAGGTGCCAGCTATTGACAGGTCAGCACCCCAAAAATTTTTTTA-TT
1 TTTTTTTT-AAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCCAAATTTTTTTTTATTT
* *
60288232 TTTTCGTATACTGATATCTGATTTTGGCACGAAAAAAATAA-AAA
64 TTTTCGTATACTGATATCTGATTCTGACACGAAAAAAA-AAGAAA
*** * * * *
60288276 ---AAATTCAATTGTACTGGGTGCCGGCCATTGACAGTCAAGCATCCAAATTTTTTTTTTATTTT
1 TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA-TTTTTTTTTATTTT
* *
60288338 TTTTGTATATTGATATCTGATTCTGACACG-AAAAAAAAGAAA
65 TTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAAA
*
60288380 TTTTTTTTAAATTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTATTTT
1 TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA-TTTTTTTTTATTTT
60288445 TTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAAA
65 TTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAAA
* * * * * * *
60288488 ATTTTTTTAAATAGTACTAGGTGCCGGCCATTAATAGGCCAGCACTCAAA-ATTTTTTTATTTTT
1 TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTATTTTT
* * *
60288552 TTCATATACTAATATCTGACTCTGACACGAAAAAAAAAAGAAA
66 TTCGTATACTGATATCTGATTCTGACACG-AAAAAAAAAGAAA
**
60288595 TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAAAATTTTTTTTT-CC
1 TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCC--AAATTTTTTTTTATT
60288659 TTTTTCGTATA
63 TTTTTCGTATA
60288670 TCAGTATTAT
Statistics
Matches: 334, Mismatches: 48, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
103 7 0.02
104 46 0.14
105 31 0.09
106 39 0.12
107 134 0.40
108 57 0.17
110 13 0.04
111 7 0.02
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (107 bp):
TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTATTTTT
TTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAAA
Found at i:60288618 original size:215 final size:210
Alignment explanation
Indices: 60288168--60288669 Score: 625
Period size: 215 Copynumber: 2.3 Consensus size: 210
60288158 ACATAAAATT
* * * * **
60288168 TTTTTTTTAAAATTGTACTAGGTGCCAGCTATTGACAGGTCAGCACCCCAAAAATTTTTTTATTT
1 TTTTTTTT-AAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAATTTTTTTTTATTT
* * * * *
60288233 TTTCGTATACTGATATCTGATTTTGGCACGAAAAAAATAAAAAAAATTCAATTGTACTGGGTGCC
65 TTTCGTATACTGATATCTGATTCTGACACGAAAAAAATAAAAAAAATTAAATAGTACTAGGTGCC
* * * ** * * *
60288298 GGCCATTGACAGTCAAGCATCCAAATTTTTTTTTTATTTTTTTTGTATATTGATATCTGATTCTG
130 GGCCATTAACAGGCAAGCATCCAAA-TATTTTTTTATTTTTTTCATATACTAATATCTGACTCTG
60288363 ACACGAAAAAAAAGAAA
194 ACACGAAAAAAAAGAAA
*
60288380 TTTTTTTTAAATTGTATTGGGTGCCGGCCATTGACAGGCCAGCA-CCCAAATTTTTTTTTTATTT
1 TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAA-TTTTTTTTTA-TT
**
60288444 TTTTCGTATACTGATATCTGATTCTGACACGAAAAAAA-AAGAAAATTTTTTTAAATAGTACTAG
64 TTTTCGTATACTGATATCTGATTCTGACACGAAAAAAATAA-AAAA---AATTAAATAGTACTAG
* *
60288508 GTGCCGGCCATTAATAGGCCAGCA-CTCAAA-ATTTTTTTATTTTTTTCATATACTAATATCTGA
125 GTGCCGGCCATTAACAGGCAAGCATC-CAAATATTTTTTTATTTTTTTCATATACTAATATCTGA
60288571 CTCTGACACGAAAAAAAAAAGAAA
189 CTCTGACACG--AAAAAAAAGAAA
**
60288595 TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAAAATTTTTTTTTCCT
1 TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCC--AAATTTTTTTTTATT
60288660 TTTTCGTATA
64 TTTTCGTATA
60288670 TCAGTATTAT
Statistics
Matches: 251, Mismatches: 27, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
210 6 0.02
211 41 0.16
212 50 0.20
213 37 0.15
214 1 0.00
215 90 0.36
216 14 0.06
217 9 0.04
218 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (210 bp):
TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAATTTTTTTTTATTTT
TTCGTATACTGATATCTGATTCTGACACGAAAAAAATAAAAAAAATTAAATAGTACTAGGTGCCG
GCCATTAACAGGCAAGCATCCAAATATTTTTTTATTTTTTTCATATACTAATATCTGACTCTGAC
ACGAAAAAAAAGAAA
Found at i:60300874 original size:18 final size:16
Alignment explanation
Indices: 60300831--60300878 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
60300821 TTTGATTATA
*
60300831 ATATTAATATTAATTT
1 ATATAAATATTAATTT
60300847 ATATAAATATTAATTT
1 ATATAAATATTAATTT
60300863 ATAATCAAATATTAAT
1 AT-AT-AAATATTAAT
60300879 ATAAACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 17 0.59
17 2 0.07
18 10 0.34
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAAATATTAATTT
Found at i:60301138 original size:23 final size:23
Alignment explanation
Indices: 60301108--60301160 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
60301098 AATACGCTAG
* *
60301108 CCAATTTTATTGGTCGATATGGT
1 CCAATTTTATTGGCCGAAATGGT
*
60301131 CCAATTTTATTGGCCGAAATTGT
1 CCAATTTTATTGGCCGAAATGGT
60301154 CCAATTT
1 CCAATTT
60301161 AGAGAGCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (23 bp):
CCAATTTTATTGGCCGAAATGGT
Found at i:60301259 original size:13 final size:14
Alignment explanation
Indices: 60301232--60301258 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60301222 AAGTTTAGAA
60301232 ATTTTTAAAATTTT
1 ATTTTTAAAATTTT
60301246 ATTTTTAAAATTT
1 ATTTTTAAAATTT
60301259 AAAATTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTTTTAAAATTTT
Found at i:60304407 original size:33 final size:33
Alignment explanation
Indices: 60304331--60304407 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
60304321 AAAAGTATTT
60304331 TAAAAATATTTTAAAATTAAAAAATAATAAAAA
1 TAAAAATATTTTAAAATTAAAAAATAATAAAAA
* **
60304364 -AAAAAGTATTTTAAAATTAAAAATTTTTAAAAA
1 TAAAAA-TATTTTAAAATTAAAAAATAATAAAAA
*
60304397 TAAATATATTT
1 TAAAAATATTT
60304408 ATTATATCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 5 0.13
33 29 0.76
34 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (33 bp):
TAAAAATATTTTAAAATTAAAAAATAATAAAAA
Found at i:60310177 original size:18 final size:20
Alignment explanation
Indices: 60310154--60310192 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
60310144 CCTTTTTTAC
60310154 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
60310172 ATATATTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
60310192 A
1 A
60310193 CTTCATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 5 0.26
20 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:60330091 original size:28 final size:29
Alignment explanation
Indices: 60330025--60330124 Score: 77
Period size: 29 Copynumber: 3.6 Consensus size: 29
60330015 ACCTTTTAAA
* *
60330025 TAAT-TAATATAA-ATTATTT-ATAAAAT
1 TAATATAATAAAATATTATTTAATAAATT
*
60330051 TGATGATATATAAAATATTA-TTAA-AAATT
1 TAAT-ATA-ATAAAATATTATTTAATAAATT
* *
60330080 TAAATATAAT-AAATAATATTTAATTAATT
1 T-AATATAATAAAATATTATTTAATAAATT
*
60330109 TAATATAATAATATAT
1 TAATATAATAAAATAT
60330125 AAAATATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
26 3 0.05
27 7 0.12
28 16 0.28
29 24 0.42
30 7 0.12
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (29 bp):
TAATATAATAAAATATTATTTAATAAATT
Found at i:60348696 original size:26 final size:25
Alignment explanation
Indices: 60348654--60348704 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
60348644 ATATTTATAA
*
60348654 TTTTTAAAAAATTAAAT-TAAATTTT
1 TTTTTAAAAAATAAAATAT-AATTTT
*
60348679 TTTTTAAAGAGATAAAATATAATTTT
1 TTTTTAAA-AAATAAAATATAATTTT
60348705 ACCATTACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 8 0.36
26 13 0.59
27 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (25 bp):
TTTTTAAAAAATAAAATATAATTTT
Found at i:60352433 original size:3 final size:3
Alignment explanation
Indices: 60352425--60352449 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
60352415 TTCATCTTCA
60352425 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
60352450 CAAGAGTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:60353977 original size:16 final size:16
Alignment explanation
Indices: 60353953--60353995 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
60353943 ATTTTTATTT
* *
60353953 TTAAGTAAAATCATCG
1 TTAATTAAAATCATCA
60353969 TTAATTAAAATCATCA
1 TTAATTAAAATCATCA
*
60353985 ATAATTAAAAT
1 TTAATTAAAAT
60353996 TAAAATATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (16 bp):
TTAATTAAAATCATCA
Found at i:60363036 original size:18 final size:19
Alignment explanation
Indices: 60363000--60363037 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
60362990 TTTTAATTTC
*
60363000 TATTCCTGAATACTTTGTT
1 TATTCATGAATACTTTGTT
60363019 TATTCATGAATA-TTTGTT
1 TATTCATGAATACTTTGTT
60363037 T
1 T
60363038 CCTTGAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (19 bp):
TATTCATGAATACTTTGTT
Found at i:60364488 original size:30 final size:30
Alignment explanation
Indices: 60364454--60364513 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
60364444 ATTTAACAAG
*
60364454 CAAATGCCTCTAAAATAACAACAAAATTAA
1 CAAATGCATCTAAAATAACAACAAAATTAA
* *
60364484 CAAATGCATTTAAAATAATAACAAAATTAA
1 CAAATGCATCTAAAATAACAACAAAATTAA
60364514 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.23
Consensus pattern (30 bp):
CAAATGCATCTAAAATAACAACAAAATTAA
Found at i:60364571 original size:22 final size:22
Alignment explanation
Indices: 60364546--60364588 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
60364536 TATCCAAACA
60364546 ATAATAACAAAATAGTAGCAAC
1 ATAATAACAAAATAGTAGCAAC
** *
60364568 ATAATAGTAAAATGGTAGCAA
1 ATAATAACAAAATAGTAGCAA
60364589 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAC
Found at i:60375764 original size:31 final size:31
Alignment explanation
Indices: 60375726--60375789 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
60375716 TGCTCTAAAC
*
60375726 TTAAAATATCAATATCGTATTAATTAAGTCA
1 TTAAAATATCAATATCGTATTAATTAAATCA
60375757 TTAAAATATCAATATCGTATTAATTAAATCA
1 TTAAAATATCAATATCGTATTAATTAAATCA
60375788 TT
1 TT
60375790 CCATCAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (31 bp):
TTAAAATATCAATATCGTATTAATTAAATCA
Found at i:60379956 original size:57 final size:60
Alignment explanation
Indices: 60379845--60379987 Score: 188
Period size: 57 Copynumber: 2.4 Consensus size: 60
60379835 AATTGACAGT
*
60379845 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAAGGATCTAGCCCGAACGGGTGATCC-AT-CTGATATAGCCCTCCCGAAGAATATGTG-G
60379908 AAAAA-GATCTAGCCCGAACGGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGGATCTAGCCCGAACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
* *
60379964 AAAATGGATTTAGCCC-AGACGGGT
1 AAAAAGGATCTAGCCCGA-ACGGGT
60379988 AATTCGAATT
Statistics
Matches: 75, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
56 6 0.08
57 42 0.56
59 1 0.01
61 1 0.01
62 20 0.27
63 5 0.07
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (60 bp):
AAAAAGGATCTAGCCCGAACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:60382713 original size:3 final size:3
Alignment explanation
Indices: 60382707--60382731 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
60382697 TATCATCATC
60382707 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
60382732 GTTGCTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:60382841 original size:20 final size:21
Alignment explanation
Indices: 60382818--60382862 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
60382808 CCAGTATTTT
*
60382818 CATATTTTATA-ATTTATATA
1 CATATTTTATATATCTATATA
60382838 CATA-TTTATATATCTATATA
1 CATATTTTATATATCTATATA
60382858 CATAT
1 CATAT
60382863 CTTGTTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (21 bp):
CATATTTTATATATCTATATA
Found at i:60383203 original size:14 final size:16
Alignment explanation
Indices: 60383168--60383229 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
60383158 AGTATACATA
60383168 TATATATACATACTTT
1 TATATATACATACTTT
**
60383184 TATATATACATGTTTT
1 TATATATACATACTTT
* *
60383200 TATATATTTCCATAATTT
1 TATATA--TACATACTTT
*
60383218 TATGTATACATA
1 TATATATACATA
60383230 TATATATGTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
16 25 0.68
18 12 0.32
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.52
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:60384868 original size:15 final size:17
Alignment explanation
Indices: 60384832--60384870 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
60384822 AAAAATTGTA
*
60384832 TAAAAATTATTATGAGT
1 TAAAATTTATTATGAGT
60384849 TAAAATTTA-TATGA-T
1 TAAAATTTATTATGAGT
60384864 TAAAATT
1 TAAAATT
60384871 CCTAATGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 5 0.24
17 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (17 bp):
TAAAATTTATTATGAGT
Found at i:60395977 original size:3 final size:3
Alignment explanation
Indices: 60395969--60396005 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
60395959 CAATTCTGCT
*
60395969 TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
60396006 AATCAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:60403359 original size:151 final size:150
Alignment explanation
Indices: 60403063--60403481 Score: 546
Period size: 151 Copynumber: 2.8 Consensus size: 150
60403053 TAAATCTCAA
* * *
60403063 ATTTGAGTGAAATATAGTGACCAAAACTGAAATTCAAACATAAAAAAATTAGAGGGATTA-AGAT
1 ATTTGAGTGAAATATAGGGATCAAAACTGAAATTTAAACAT--AAAAATTAGAGGGATTAGA-AT
* * *
60403127 TGAAATTTAGCCATTATCTTGTCA-TTT-AAAAG--AAAG-AGAAAACGTTAGACATGTGTCATG
63 TGAAATTTAGCCATTATCTTATCATTTTAAAAAGAAAAAGAAGAAAACATTGGACATGTGTCATG
*
60403187 TAGGGAAGGCCTTACGGCTATAG
128 TAAGGAAGGCCTTACGGCTATAG
* * * *
60403210 ATTTGAGTGAAAAATAGGGATCAAAATTGAAATTTGATCATAAAAATTAGAGGGATTAGAATTGA
1 ATTTGAGTGAAATATAGGGATCAAAACTGAAATTTAAACATAAAAATTAGAGGGATTAGAATTGA
*
60403275 AATTTAGCCATTGTCTTATCATTTTAAAAAGAAAAGAGAAGAAAACATTGGACATGTGTCATGTA
66 AATTTAGCCATTATCTTATCATTTTAAAAAGAAAA-AGAAGAAAACATTGGACATGTGTCATGTA
*
60403340 AGGAAGGCCTTAGGGCTATAG
130 AGGAAGGCCTTACGGCTATAG
* * *
60403361 ATTTGAGTGAAATGTAGGGATCAAAACTGAAATTTAACCATAAAAAATAGAGGGATTAGAATTGA
1 ATTTGAGTGAAATATAGGGATCAAAACTGAAATTTAAACATAAAAATTAGAGGGATTAGAATTGA
* * * * *
60403426 AATTTAGCCATTAATCTTCTCATGTGAAAAA-AAAAAAAAAAAACACATTGGACATG
66 AATTTAGCCATT-ATCTTATCATTTTAAAAAGAAAAAGAAGAAA-ACATTGGACATG
60403482 GACATATGGT
Statistics
Matches: 238, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
145 41 0.17
146 4 0.02
147 39 0.16
149 2 0.01
150 8 0.03
151 130 0.55
152 14 0.06
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (150 bp):
ATTTGAGTGAAATATAGGGATCAAAACTGAAATTTAAACATAAAAATTAGAGGGATTAGAATTGA
AATTTAGCCATTATCTTATCATTTTAAAAAGAAAAAGAAGAAAACATTGGACATGTGTCATGTAA
GGAAGGCCTTACGGCTATAG
Found at i:60406129 original size:34 final size:34
Alignment explanation
Indices: 60406086--60406152 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
60406076 ACACATCAGT
*
60406086 TGCTATAATCATCAAATGGCTATGGATGTGAGGC
1 TGCTATAATCATCAAATGGCTATGGATCTGAGGC
60406120 TGCTATAATCATCAAATGGCTATGGATCTGAGG
1 TGCTATAATCATCAAATGGCTATGGATCTGAGG
60406153 GTTAGTGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (34 bp):
TGCTATAATCATCAAATGGCTATGGATCTGAGGC
Found at i:60411213 original size:21 final size:21
Alignment explanation
Indices: 60411184--60411223 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
60411174 AATATATATG
*
60411184 TCTATAAAA-ATATATAAATAA
1 TCTAAAAAACATATA-AAATAA
60411205 TCTAAAAAACATATAAAAT
1 TCTAAAAAACATATAAAAT
60411224 CTAATTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (21 bp):
TCTAAAAAACATATAAAATAA
Found at i:60411405 original size:3 final size:3
Alignment explanation
Indices: 60411399--60411424 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
60411389 ATCATCATCA
60411399 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
60411425 ATCACCAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:60415104 original size:18 final size:18
Alignment explanation
Indices: 60415081--60415117 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
60415071 TATACTTTGG
*
60415081 TATTTGGTTTATTCAAAT
1 TATTTGATTTATTCAAAT
*
60415099 TATTTGATTTATTCGAAT
1 TATTTGATTTATTCAAAT
60415117 T
1 T
60415118 TGAAAACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (18 bp):
TATTTGATTTATTCAAAT
Found at i:60416579 original size:51 final size:51
Alignment explanation
Indices: 60416423--60416609 Score: 173
Period size: 51 Copynumber: 3.7 Consensus size: 51
60416413 GTTGGTCGCG
* *
60416423 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGA-ATAATAGGTCGCA
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATGTAATAGGTCACA
* * * * * * * * * *
60416473 TATGTAGTACTATGTGCAGGCTACTATGCGTGCCGAATAGT-TTCGATCACG
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAT-GTAATAGGTCACA
* * *
60416524 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAAT-GGTTACA
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAT-GTAATAGGTCACA
* * *
60416575 TGTGTAGTAATATGTGCAAGCTACTATGTGAACCG
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCG
60416610 AACATCATTG
Statistics
Matches: 106, Mismatches: 28, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
50 31 0.29
51 73 0.69
52 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATGTAATAGGTCACA
Found at i:60416661 original size:45 final size:45
Alignment explanation
Indices: 60416606--60416691 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
60416596 TACTATGTGA
* *
60416606 ACCGAACATCATTGATTAGTAAGGTGATTGTTATGTGCTGATTCT
1 ACCGAACATCATTGATTAATAAGGTGATTGCTATGTGCTGATTCT
* *
60416651 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGA
1 ACCGAACATCATTGATTAATAAGGTGATTGCTATGTGCTGA
60416692 ATCCTGAACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGATTGCTATGTGCTGATTCT
Found at i:60418862 original size:23 final size:24
Alignment explanation
Indices: 60418826--60418870 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
60418816 ATAAAATCAA
*
60418826 GAAATTCAATGTAATCGGGGGGGC
1 GAAATTCAATGTAATCAGGGGGGC
*
60418850 GAAA-TCATTGTAATCAGGGGG
1 GAAATTCAATGTAATCAGGGGG
60418871 ATTTTCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.31, C:0.11, G:0.36, T:0.22
Consensus pattern (24 bp):
GAAATTCAATGTAATCAGGGGGGC
Found at i:60419825 original size:3 final size:3
Alignment explanation
Indices: 60419819--60419885 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
60419809 ATAATAATAA
* * *
60419819 TAT TAT TAT TAT TAT TAT CAT TAT TCT TAT TAT TAC TAT TAAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
* *
60419865 TAT TTT TAT TTT TAT TCAT TA
1 TAT TAT TAT TAT TAT T-AT TA
60419886 CTACTTTGTT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:60438652 original size:19 final size:17
Alignment explanation
Indices: 60438619--60438653 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
60438609 TAGGTTATTG
60438619 AAATTTTATAAATAAAA
1 AAATTTTATAAATAAAA
60438636 AAATTATTATCAAATAAA
1 AAATT-TTAT-AAATAAA
60438654 TAATATAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTTTATAAATAAAA
Found at i:60441180 original size:24 final size:24
Alignment explanation
Indices: 60441146--60441197 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
60441136 TTTCTAGAAG
* *
60441146 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
60441170 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
60441194 ATTT
1 ATTT
60441198 GACTTTGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:60442174 original size:26 final size:26
Alignment explanation
Indices: 60442145--60442194 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
60442135 GATCGAATTA
60442145 TTCAAACAGAGGTAAAACTTGTAACC
1 TTCAAACAGAGGTAAAACTTGTAACC
*
60442171 TTCAAACATAGGTAAAACTTGTAA
1 TTCAAACAGAGGTAAAACTTGTAA
60442195 GTTCTGCCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (26 bp):
TTCAAACAGAGGTAAAACTTGTAACC
Found at i:60444971 original size:47 final size:47
Alignment explanation
Indices: 60444919--60445326 Score: 600
Period size: 47 Copynumber: 8.6 Consensus size: 47
60444909 GATAATTGTG
* *
60444919 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
60444966 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
60445013 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
60445062 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
60445109 ATGTGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 A--TGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60445160 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60445207 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
60445254 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTAGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
60445301 ATGTGAAAGCGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
60445327 TCCCGAAGGG
Statistics
Matches: 329, Mismatches: 26, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
47 229 0.70
49 65 0.20
51 35 0.11
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:60445026 original size:96 final size:96
Alignment explanation
Indices: 60444919--60445326 Score: 657
Period size: 96 Copynumber: 4.3 Consensus size: 96
60444909 GATAATTGTG
60444919 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
60444982 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATAGCCAATGTGATGA
60445013 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
60445078 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATAGCCAATGTGATGA
60445109 ATGTGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 A--TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
60445174 ATATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATATGTGATAAGGCCGAATAGCCAATGTGATGA
*
60445207 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * *
60445270 ATGTGACAGGGCCGAGTAGCCAACGTGATGG
66 ATGTGATAAGGCCGAATAGCCAATGTGATGA
*
60445301 ATGTGAAAGCGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
60445327 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 13, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
94 99 0.34
95 3 0.01
96 100 0.34
98 93 0.32
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATAGCCAATGTGATGA
Found at i:60445202 original size:145 final size:141
Alignment explanation
Indices: 60444919--60445326 Score: 618
Period size: 145 Copynumber: 2.9 Consensus size: 141
60444909 GATAATTGTG
* *
60444919 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
60444984 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATA
60445049 GCCGATGTGATGA
129 GCCGATGTGATGA
* *
60445062 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA--TGTGAAAGTG--TAT
* *
60445127 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
62 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
60445192 TAGCCGATGTGATGA
127 TAGCCGATGTGATGA
*
60445207 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * * *
60445272 GTGACAGGGCCGAGTAGCCAACGTGATGGATGTGAAAGCGTATAAATGTGATAAG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60445327 TCCCGAAGGG
Statistics
Matches: 241, Mismatches: 20, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
141 52 0.22
143 54 0.22
145 90 0.37
147 45 0.19
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
CGATGTGATGA
Found at i:60450044 original size:24 final size:24
Alignment explanation
Indices: 60449981--60450032 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
60449971 TTTTTAGAAG
* * *
60449981 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
60450005 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
60450029 ATTT
1 ATTT
60450033 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:60462319 original size:8 final size:8
Alignment explanation
Indices: 60462294--60462331 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
60462284 ATATAAATAT
60462294 AAATA-TA
1 AAATATTA
* *
60462301 AAAAATAA
1 AAATATTA
60462309 AAATATTA
1 AAATATTA
60462317 AAATATTA
1 AAATATTA
60462325 AAATATT
1 AAATATT
60462332 TAGTATCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
7 4 0.15
8 22 0.85
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
AAATATTA
Found at i:60462327 original size:16 final size:16
Alignment explanation
Indices: 60462288--60462331 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
60462278 TTTTAAATAT
*
60462288 AAATATAAATA-TAAA
1 AAATAAAAATATTAAA
60462303 AAATAAAAATATTAAA
1 AAATAAAAATATTAAA
* *
60462319 ATATTAAAATATT
1 AAATAAAAATATT
60462332 TAGTATCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATAAAAATATTAAA
Found at i:60466688 original size:20 final size:20
Alignment explanation
Indices: 60466654--60466695 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
60466644 AACTATTTAA
** *
60466654 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
60466674 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
60466694 AT
1 AT
60466696 GTGTTTATTT
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:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:60470795 original size:6 final size:6
Alignment explanation
Indices: 60470786--60470814 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
60470776 GTGCTAATTC
60470786 AGGTGA AGGTGA AGGTGA AGGTGA AGGTG
1 AGGTGA AGGTGA AGGTGA AGGTGA AGGTG
60470815 CAGGAGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.52, T:0.17
Consensus pattern (6 bp):
AGGTGA
Found at i:60476994 original size:72 final size:71
Alignment explanation
Indices: 60476885--60477019 Score: 225
Period size: 72 Copynumber: 1.9 Consensus size: 71
60476875 TTAAAAACAG
* * * *
60476885 GGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCTGAGATCATTTAAAACTTGAGA
1 GGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCATTT-AAACTTGAGA
60476950 AAAAAAT
65 AAAAAAT
60476957 GGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCATTTAAACTTGAG
1 GGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCATTTAAACTTGAG
60477020 TTTGAAAAGA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
71 9 0.15
72 50 0.85
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (71 bp):
GGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCATTTAAACTTGAGAA
AAAAAT
Found at i:60477668 original size:25 final size:26
Alignment explanation
Indices: 60477636--60477695 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
60477626 ATGAGTACGT
*
60477636 ATGTATATATA-TATGAAAATA-AAAA
1 ATGTATATAGATTAT-AAAATATAAAA
*
60477661 ATGTATATAGATTATAGAATATAAAA
1 ATGTATATAGATTATAAAATATAAAA
*
60477687 ATATATATA
1 ATGTATATA
60477696 AGTATGTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.50
26 15 0.50
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (26 bp):
ATGTATATAGATTATAAAATATAAAA
Found at i:60477817 original size:13 final size:13
Alignment explanation
Indices: 60477799--60477839 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
60477789 AGTATAAATG
60477799 AATAAATAATAAT
1 AATAAATAATAAT
60477812 AATAAATAATAAT
1 AATAAATAATAAT
*
60477825 -AT-AATAATATT
1 AATAAATAATAAT
60477836 AATA
1 AATA
60477840 GTATTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 8 0.32
12 4 0.16
13 13 0.52
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:60477818 original size:21 final size:21
Alignment explanation
Indices: 60477792--60477833 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
60477782 TTAAAAAAGT
60477792 ATAAATGAATAA-ATAATAATA
1 ATAAAT-AATAATATAATAATA
60477813 ATAAATAATAATATAATAATA
1 ATAAATAATAATATAATAATA
60477834 TTAATAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
ATAAATAATAATATAATAATA
Found at i:60477844 original size:9 final size:9
Alignment explanation
Indices: 60477803--60477851 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
60477793 TAAATGAATA
*
60477803 AATAATAAT
1 AATAATATT
60477812 AATAA-A-T
1 AATAATATT
60477819 AATAATA-T
1 AATAATATT
60477827 AATAATATT
1 AATAATATT
*
60477836 AATAGTATT
1 AATAATATT
60477845 AAATAAT
1 -AATAAT
60477852 TAATTTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 6 0.17
8 10 0.29
9 14 0.40
10 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (9 bp):
AATAATATT
Found at i:60479257 original size:22 final size:22
Alignment explanation
Indices: 60479232--60479309 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
60479222 TAATAACAAA
* *
60479232 AAAATAGTAACAATATAATAGT
1 AAAATAGTAACAAAATAATAGC
* * *
60479254 AAAATGGTAGCAAAATAATAAC
1 AAAATAGTAACAAAATAATAGC
* *
60479276 AAAACA-TCAACAAAACAATAGC
1 AAAATAGT-AACAAAATAATAGC
60479298 AAAATAGTAACA
1 AAAATAGTAACA
60479310 GAACAACAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
21 1 0.02
22 41 0.95
23 1 0.02
ACGTcount: A:0.62, C:0.12, G:0.09, T:0.18
Consensus pattern (22 bp):
AAAATAGTAACAAAATAATAGC
Found at i:60488624 original size:20 final size:21
Alignment explanation
Indices: 60488565--60488625 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
60488555 GGCTTTGCCG
* *
60488565 ATCAGACACTTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
**
60488586 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
*
60488607 TTCAGGCA-CTTATGTGTCG
1 ATCAGGCACCTTATGTGTCG
60488626 CATACTGATC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 9 0.27
21 24 0.73
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (21 bp):
ATCAGGCACCTTATGTGTCGT
Found at i:60490670 original size:15 final size:15
Alignment explanation
Indices: 60490641--60490678 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
60490631 AACGCTCCGT
60490641 AATAAAATTTATAAA
1 AATAAAATTTATAAA
60490656 AA-AAAATTATATAAA
1 AATAAAATT-TATAAA
60490671 AATAAAAT
1 AATAAAAT
60490679 ATGATATTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 10 0.48
16 5 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAAAATTTATAAA
Found at i:60491417 original size:44 final size:45
Alignment explanation
Indices: 60491326--60491418 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 45
60491316 TTCGCTGTAT
* *
60491326 TGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATGTAA
1 TGGAATAGAGGCGTAATAGCAATTCAATTGTTTAGTTGAATGGAA
* *
60491371 TGGAATAGAGGCGTAATAG-TATTC-TTGTGTTTAGTTGAATGGAA
1 TGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTAGTTGAATGGAA
60491415 TGGA
1 TGGA
60491419 GGTGTACTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.53
45 19 0.44
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.34
Consensus pattern (45 bp):
TGGAATAGAGGCGTAATAGCAATTCAATTGTTTAGTTGAATGGAA
Found at i:60491596 original size:18 final size:17
Alignment explanation
Indices: 60491575--60491609 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60491565 TTATTATTAA
*
60491575 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60491593 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60491610 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60491727 original size:59 final size:57
Alignment explanation
Indices: 60491555--60491730 Score: 158
Period size: 59 Copynumber: 3.0 Consensus size: 57
60491545 TTAATCATAT
* *
60491555 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC
1 TTTAACATAATTATTATTGAATATATTTTAATTAAAATATATAATTTAATAAAATTA
* * * ** * * * *
60491612 TTAATAATCA-ATATTCTTATATGAATTTACTAAAATCATAATATATGATACT-ATAAAATATAA
1 TT--TAA-CATA-ATTATTAT-TGAATATATTTTAATTAAAATATATAAT-TTAATAAAAT-T-A
*
60491675 TTTAACATAATTATTATTGAATATATTTTAATTAAAATATCTAATTTAATAAAATT
1 TTTAACATAATTATTATTGAATATATTTTAATTAAAATATATAATTTAATAAAATT
60491731 CTCAATAATC
Statistics
Matches: 88, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
57 2 0.02
58 2 0.02
59 31 0.35
60 18 0.20
61 31 0.35
62 2 0.02
63 2 0.02
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (57 bp):
TTTAACATAATTATTATTGAATATATTTTAATTAAAATATATAATTTAATAAAATTA
Found at i:60497407 original size:2 final size:2
Alignment explanation
Indices: 60497400--60497429 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
60497390 TATGCAGCTA
60497400 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60497430 GATAAAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60499278 original size:20 final size:19
Alignment explanation
Indices: 60499253--60499299 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
60499243 TGGGTGTATC
60499253 TGTTGATAAGCATTTGACT-A
1 TGTTGATAAGCA-TT-ACTGA
*
60499273 TGTTGACTAATCATTACTGA
1 TGTTGA-TAAGCATTACTGA
60499293 TGTTGAT
1 TGTTGAT
60499300 TGAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 15 0.62
21 5 0.21
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.43
Consensus pattern (19 bp):
TGTTGATAAGCATTACTGA
Found at i:60499401 original size:21 final size:21
Alignment explanation
Indices: 60499359--60499406 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
60499349 AAGAAATGTA
60499359 AAAAATTATAAAATAAATATT
1 AAAAATTATAAAATAAATATT
* *
60499380 AAAAATTTTATAA-AAATAATT
1 AAAAATTATAAAATAAAT-ATT
60499401 AAAAAT
1 AAAAAT
60499407 AAAATTAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATTATAAAATAAATATT
Found at i:60499982 original size:29 final size:30
Alignment explanation
Indices: 60499950--60500017 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
60499940 AGGAGTTTCT
60499950 AATATATATTT-ATTCTT-TTAAAAATTTTA
1 AATATAT-TTTAATTCTTCTTAAAAATTTTA
** *
60499979 AATA-ATTTTAATTCTTCTTTTACATTTTA
1 AATATATTTTAATTCTTCTTAAAAATTTTA
*
60500008 AATATTTTTT
1 AATATATTTT
60500018 TATAGTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 3 0.09
28 8 0.25
29 17 0.53
30 4 0.12
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (30 bp):
AATATATTTTAATTCTTCTTAAAAATTTTA
Found at i:60508234 original size:24 final size:23
Alignment explanation
Indices: 60508200--60508263 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
60508190 ATTTATATAG
60508200 TATTTTCAAATATATATAATATTAT
1 TATTTTCAAATATA-A-AATATTAT
60508225 TATTTT-AAATATAAAATA-T-T
1 TATTTTCAAATATAAAATATTAT
*
60508245 TATTTTTACAATATAAAAT
1 TATTTTCA-AATATAAAAT
60508264 TTTAAATGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
20 7 0.19
21 2 0.05
22 14 0.38
23 1 0.03
24 7 0.19
25 6 0.16
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTTTCAAATATAAAATATTAT
Found at i:60514082 original size:17 final size:18
Alignment explanation
Indices: 60514047--60514083 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
60514037 GCTACAAAAC
*
60514047 AAAATGAAGAAATAGAAG
1 AAAATGAAGAAAAAGAAG
60514065 AAAATGAA-AAAAAGAAG
1 AAAATGAAGAAAAAGAAG
60514082 AA
1 AA
60514084 GCTATTGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (18 bp):
AAAATGAAGAAAAAGAAG
Found at i:60515075 original size:17 final size:15
Alignment explanation
Indices: 60515045--60515080 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
60515035 TTTAAAATTT
60515045 TAAAAATATAAAATA
1 TAAAAATATAAAATA
60515060 TAAAATATATTAAAATA
1 TAAAA-ATA-TAAAATA
60515077 TAAA
1 TAAA
60515081 TAAAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 3 0.16
17 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAATATAAAATA
Found at i:60516015 original size:282 final size:283
Alignment explanation
Indices: 60515689--60516225 Score: 870
Period size: 282 Copynumber: 1.9 Consensus size: 283
60515679 TGACCTATTA
* **
60515689 ACTATGACTATACCTGACACATTTTGTATTTTTTTTTTCTAAACAAAATTTTTGGGATCA-ATGA
1 ACTATGACTACACCTGACACATTTTGTAAGTTTTTTTTCTAAACAAAATTTTTGGGATCAGA-GA
* *
60515753 AATTTTTGAGAAACGTTGAAATCGCTTTGAGGAGCTCAATTTCT-C-CTCTCTTTTAAAATTTGT
65 AATTTTTGAGAAACGTTGAAATCGCTTTGAGGAGCCCAATTTCTCCTCTCTCTTTTAAAATTTAT
*
60515816 TTTTATTTTGGAACATATTATGGAGTGTTTTATTTTGAATTTTTTTTAAAATTGTTTTATTTTTA
130 TTTTATTTTGGAACATATTATGGAGTGTTTTATTTTGAA-TTTTTTT-AAATTGTTTTATTTTGA
* *
60515881 TAAAATAAATCCTCATTAAAGCAAAGTCTT-ACTTTGACTAATTAGATCAAGTCAACTCCAACAT
193 TAAAATAAATCCTCATTAAA-AAAAGTCTTAACTTTGACTAATTACATCAAGTCAACTCCAACAT
60515945 CGCTTGGTCTACCACTCTTTTCCGTTG
257 CGCTTGGTCTACCACTCTTTTCCGTTG
*
60515972 ACTATGACTGACACCTGACACA-TTT-TAAGTTTTTTTTCTAAACAAAATTTTTGGTATCAGAGA
1 ACTATGACT-ACACCTGACACATTTTGTAAGTTTTTTTTCTAAACAAAATTTTTGGGATCAGAGA
* * *
60516035 AATTTTTTAGAAACGTTGGAATCGCTTTGAGGAGCCCAATTTTTCCTCTCTCTTTTAAAATTTAT
65 AATTTTTGAGAAACGTTGAAATCGCTTTGAGGAGCCCAATTTCTCCTCTCTCTTTTAAAATTTAT
60516100 TTTTATTTTGGAACATATTATGGAGTGTTTTATTTTGAATTTTTTTAAATTGTTTTATTTTGATA
130 TTTTATTTTGGAACATATTATGGAGTGTTTTATTTTGAATTTTTTTAAATTGTTTTATTTTGATA
*
60516165 AAATAAATCCTTATTAAAAAAAGTCTTAACTTTGACTAATTACATCAAGTCAACTCCAACA
195 AAATAAATCCTCATTAAAAAAAGTCTTAACTTTGACTAATTACATCAAGTCAACTCCAACA
60516226 CCACTTACCT
Statistics
Matches: 236, Mismatches: 13, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
281 8 0.03
282 140 0.59
283 21 0.09
284 67 0.28
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (283 bp):
ACTATGACTACACCTGACACATTTTGTAAGTTTTTTTTCTAAACAAAATTTTTGGGATCAGAGAA
ATTTTTGAGAAACGTTGAAATCGCTTTGAGGAGCCCAATTTCTCCTCTCTCTTTTAAAATTTATT
TTTATTTTGGAACATATTATGGAGTGTTTTATTTTGAATTTTTTTAAATTGTTTTATTTTGATAA
AATAAATCCTCATTAAAAAAAGTCTTAACTTTGACTAATTACATCAAGTCAACTCCAACATCGCT
TGGTCTACCACTCTTTTCCGTTG
Found at i:60517460 original size:16 final size:15
Alignment explanation
Indices: 60517439--60517471 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
60517429 CAAAGAAAAA
60517439 AATAAAATAAATCAAT
1 AATAAAATAAAT-AAT
60517455 AATAAAATAAATAAT
1 AATAAAATAAATAAT
60517470 AA
1 AA
60517472 CAATGATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAAAATAAATAAT
Found at i:60517475 original size:21 final size:20
Alignment explanation
Indices: 60517437--60517486 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
60517427 ATCAAAGAAA
*
60517437 AAAATAAAATAAATCAATAAT
1 AAAAT-AAATAAAACAATAAT
*
60517458 AAAATAAATAATAACAATGAT
1 AAAATAAATAA-AACAATAAT
60517479 AACAATAA
1 AA-AATAA
60517487 TAGTTCTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
21 14 0.56
22 5 0.20
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAATAAATAAAACAATAAT
Found at i:60517763 original size:18 final size:18
Alignment explanation
Indices: 60517732--60517766 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60517722 CAAAAAACAA
**
60517732 AAATAAATGTATAAATAT
1 AAATAAATAAATAAATAT
60517750 AAATAAATAAATAAATA
1 AAATAAATAAATAAATA
60517767 AATACAAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAATAAATAAATAAATAT
Found at i:60518118 original size:21 final size:21
Alignment explanation
Indices: 60518092--60518142 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
60518082 AGAAAACATG
* *
60518092 CGGATCTTAGGGGTCTTGGGT
1 CGGATCTCAAGGGTCTTGGGT
60518113 CGGATCTCAAGGGTCTTGGGT
1 CGGATCTCAAGGGTCTTGGGT
60518134 CGGATCTCA
1 CGGATCTCA
60518143 GGTCAATGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.14, C:0.20, G:0.37, T:0.29
Consensus pattern (21 bp):
CGGATCTCAAGGGTCTTGGGT
Found at i:60519351 original size:44 final size:44
Alignment explanation
Indices: 60519326--60519703 Score: 132
Period size: 44 Copynumber: 8.5 Consensus size: 44
60519316 TTTAATTCGG
*
60519326 TCCACTGCAACTTTAGGGAGATAGGATTAGTAGCTTCAATCTGC
1 TCCACTACAACTTTAGGGAGATAGGATTAGTAGCTTCAATCTGC
*
60519370 TCCACTACAACTTTAGGGAGATAAGG-TT--T-GCTAT-GATCTGC
1 TCCACTACAACTTTAGGGAGAT-AGGATTAGTAGCT-TCAATCTGC
** * * ** ** * ** *
60519411 TTTACTGCAACTTCAAAGAGATAATATTTGCTATTTTCAGTCTGC
1 TCCACTACAACTTTAGGGAGATAGGATTAG-TAGCTTCAATCTGC
* * * * *
60519456 TCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAACCTGC
1 TCCACTACAACTTTAGGGAGATAGGA-TTAGTAGCTTCAATCTGC
* * *
60519500 TCCACTGCAACTTCAGGGAGATAAGG-TT--T-GCTAT-GATCTGC
1 TCCACTACAACTTTAGGGAGAT-AGGATTAGTAGCT-TCAATCTGC
* * * * * * *
60519541 TCTACTGCAACTTCAGAGAGATAAGATCTACCATTTATAGCTTCAATCTGT
1 TCCACTACAACTTTAGGGAGATAGGAT-T---A---GTAGCTTCAATCTGC
* * * ** * * *
60519592 TCCACTACAACTTCAGGGAAATAAGATTCTCTATCTTTAGTCTGC
1 TCCACTACAACTTTAGGGAGATAGGATT-AGTAGCTTCAATCTGC
** * * * *
60519637 TCCACTGTAACTTCAGGGAGATAAGACTTA-TAACTTCAACCTGC
1 TCCACTACAACTTTAGGGAGATAGGA-TTAGTAGCTTCAATCTGC
* *
60519681 TCCACTGCAACTTCAGGGAGATA
1 TCCACTACAACTTTAGGGAGATA
60519704 AGGTTTGCTA
Statistics
Matches: 259, Mismatches: 51, Indels: 48
0.72 0.14 0.13
Matches are distributed among these distances:
40 3 0.01
41 55 0.21
42 5 0.02
43 2 0.01
44 89 0.34
45 66 0.25
46 4 0.02
48 1 0.00
50 3 0.01
51 31 0.12
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
TCCACTACAACTTTAGGGAGATAGGATTAGTAGCTTCAATCTGC
Found at i:60519422 original size:41 final size:41
Alignment explanation
Indices: 60519326--60519746 Score: 224
Period size: 41 Copynumber: 9.6 Consensus size: 41
60519316 TTTAATTCGG
*
60519326 TCCACTGCAACTTTAGGGAGAT-AGGATTAGTAGCT-TCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGG-TT--T-GCTAT-AATCTGC
* * *
60519370 TCCACTACAACTTTAGGGAGATAAGGTTTGCTATGATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGGTTTGCTATAATCTGC
** ** ** *
60519411 TTTACTGCAACTTCAAAGAGATAATATTTGCTATTTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGGTTTGCTA---T-AATCTGC
** *
60519456 TCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGGTTTGCT-A--T-AATCTGC
*
60519500 TCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGGTTTGCTATAATCTGC
* * * *
60519541 TCTACTGCAACTTCAGAGAGATAAGATCTACCATTTATAGCT-TCAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAG--------GTT-T-GCTAT-AATCTGC
* * * *
60519592 TCCACTACAACTTCAGGGAAATAAGATTCT-CTATCTTTAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGGTT-TGCTA----TAATCTGC
* * * *
60519637 TCCACTGTAACTTCAGGGAGATAAGACTTATAACT-TCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAG-GTT-T-GCTAT-AATCTGC
*
60519681 TCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGGTTTGCTATAATCTGC
* * *
60519722 TCTACTGTAACTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAG
60519747 ATCTGTAATT
Statistics
Matches: 295, Mismatches: 53, Indels: 61
0.72 0.13 0.15
Matches are distributed among these distances:
41 93 0.32
42 5 0.02
43 6 0.02
44 91 0.31
45 61 0.21
46 4 0.01
48 2 0.01
49 2 0.01
50 2 0.01
51 29 0.10
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (41 bp):
TCCACTGCAACTTCAGGGAGATAAGGTTTGCTATAATCTGC
Found at i:60519500 original size:130 final size:130
Alignment explanation
Indices: 60519326--60519564 Score: 390
Period size: 130 Copynumber: 1.8 Consensus size: 130
60519316 TTTAATTCGG
* * * * *
60519326 TCCACTGCAACTTTAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTACAACTTTAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGA
*
60519391 TAAGGTTTGCTATGATCTGCTTTACTGCAACTTCAAAGAGATAATATTTGCTATTTTCAGTCTGC
66 TAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAATATTTGCTATTTTCAGTCTGC
*
60519456 TCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAACCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGA-TTAGTAACTTCAACCTGCTCCACTACAACTTCAGGGAG
*
60519520 ATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAGATAA
65 ATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAA
60519565 GATCTACCAT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
130 98 0.98
131 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (130 bp):
TCCACTGCAACTTCAGGGAGATAAGATTAGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGA
TAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAATATTTGCTATTTTCAGTCTGC
Found at i:60519530 original size:89 final size:88
Alignment explanation
Indices: 60519414--60519895 Score: 458
Period size: 89 Copynumber: 5.4 Consensus size: 88
60519404 GATCTGCTTT
** * *
60519414 ACTGCAACTTCAAAGAGATAATATTTGCTATTTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTTGCTA-TTTCAGTCTGCTCCACTGCAACTTCAGAGAGATA
60519479 AGACTTGTAACTTCAACCTGCTCC
65 AGACTTGTAACTTCAACCTGCTCC
* * *
60519503 ACTGCAACTTCAGGGAGATAAGGTTTGCTA--TGA-TCTGCTCTACTGCAACTTCAGAGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAA
* * *
60519565 GATCTACCATTTATAGCTTCAATCTGTTCC
66 GA-CT----TGTA-A-CTTCAACCTGCTCC
* * * * *
60519595 ACTACAACTTCAGGGAAATAAGATTCT-CTATCTTTAGTCTGCTCCACTGTAACTTCAGGGAGAT
1 ACTGCAACTTCAGGGAGATAAGATT-TGCTAT-TTCAGTCTGCTCCACTGCAACTTCAGAGAGAT
*
60519659 AAGACTTATAACTTCAACCTGCTCC
64 AAGACTTGTAACTTCAACCTGCTCC
* * * *
60519684 ACTGCAACTTCAGGGAGATAAGGTTTGCTA--TGA-TCTGCTCTACTGTAACTTCAGAGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAA
* *
60519746 GATCTGTAATTTATAGCTTCAATCC-GTTCC
66 GA-C--T--TGTA-A-CTTCAA-CCTGCTCC
* * * * * *
60519776 ACTGTAACTTCAGTGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAGTGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTTGCTAT-TTCAGTCTGCTCCACTGCAACTTCAGAGAGATA
*
60519841 AGACTAGTAACTTCAACCTGCTCC
65 AGACTTGTAACTTCAACCTGCTCC
* *
60519865 ACTGTAACTTCAGGGAGATAAGGTTTGCTAT
1 ACTGCAACTTCAGGGAGATAAGATTTGCTAT
60519896 GATCTTCAAT
Statistics
Matches: 322, Mismatches: 45, Indels: 52
0.77 0.11 0.12
Matches are distributed among these distances:
85 58 0.18
86 7 0.02
88 4 0.01
89 100 0.31
90 8 0.02
91 7 0.02
92 72 0.22
93 4 0.01
95 7 0.02
96 55 0.17
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (88 bp):
ACTGCAACTTCAGGGAGATAAGATTTGCTATTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAA
GACTTGTAACTTCAACCTGCTCC
Found at i:60519606 original size:92 final size:89
Alignment explanation
Indices: 60519451--60519900 Score: 410
Period size: 92 Copynumber: 5.0 Consensus size: 89
60519441 CTATTTTCAG
*
60519451 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT---TGTA-A-CTTCAACCTGCTCCACTGCAAC
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTACAT-TATAGCTTCAACCTGCTCCACTGCAAC
60519511 TTCAGGGAGATAAGGTTTGCTATGA
65 TTCAGGGAGATAAGGTTTGCTATGA
* * * *
60519536 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACCATTTATAGCTTCAATCTGTTCCACTACA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTA-CA-TTATAGCTTCAACCTGCTCCACTGCA
* * *
60519601 ACTTCAGGGAAATAAGATTCT-CTATCTTTA
63 ACTTCAGGGAGATAAGGTT-TGCTA---TGA
* * *
60519631 GTCTGCTCCACTGTAACTTCAGGGAGATAAG---AC-TTATAACTTCAACCTGCTCCACTGCAAC
1 -TCTGCTCCACTGCAACTTCAGAGAGATAAGACTACATTATAGCTTCAACCTGCTCCACTGCAAC
60519692 TTCAGGGAGATAAGGTTTGCTATGA
65 TTCAGGGAGATAAGGTTTGCTATGA
* * *
60519717 TCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTA-ATTTATAGCTTCAATCC-GTTCCACTG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA-C--TACA-TTATAGCTTCAA-CCTGCTCCACTG
* * * * * *
60519780 TAACTTCAGTGAAATAAGATTCGCTATCTTCA
61 CAACTTCAGGGAGATAAGGTTTGCTA---TGA
* * * *
60519812 GTCTGCTCCACTGCAACTTTAGTGAGATAAGACT--AGTA-A-CTTCAACCTGCTCCACTGTAAC
1 -TCTGCTCCACTGCAACTTCAGAGAGATAAGACTACATTATAGCTTCAACCTGCTCCACTGCAAC
60519873 TTCAGGGAGATAAGGTTTGCTATGA
65 TTCAGGGAGATAAGGTTTGCTATGA
60519898 TCT
1 TCT
60519901 TCAATCCATC
Statistics
Matches: 298, Mismatches: 39, Indels: 56
0.76 0.10 0.14
Matches are distributed among these distances:
85 60 0.20
86 6 0.02
88 3 0.01
89 78 0.26
90 3 0.01
91 6 0.02
92 79 0.27
93 4 0.01
95 5 0.02
96 54 0.18
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (89 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTACATTATAGCTTCAACCTGCTCCACTGCAACT
TCAGGGAGATAAGGTTTGCTATGA
Found at i:60519651 original size:181 final size:181
Alignment explanation
Indices: 60519431--60519900 Score: 762
Period size: 181 Copynumber: 2.6 Consensus size: 181
60519421 CTTCAAAGAG
* *
60519431 ATAATATTTGCTAT-TTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA
1 ATAAGATTCGCTATCTTT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA
60519495 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGA
65 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGA
* *
60519560 GATAAGATCTACCATTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAA
130 GATAAGATCTACAATTTATAGCTTCAATCCGTTCCACTACAACTTCAGGGAA
* * *
60519612 ATAAGATTCTCTATCTTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTTATAACTTCAAC
1 ATAAGATTCGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAC
*
60519677 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGTAACTTCAGAGAG
66 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAG
** ** *
60519742 ATAAGATCTGTAATTTATAGCTTCAATCCGTTCCACTGTAACTTCAGTGAA
131 ATAAGATCTACAATTTATAGCTTCAATCCGTTCCACTACAACTTCAGGGAA
* * * *
60519793 ATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAGTGAGATAAGACTAGTAACTTCAAC
1 ATAAGATTCGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAC
*
60519858 CTGCTCCACTGTAACTTCAGGGAGATAAGGTTTGCTATGATCT
66 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCT
60519901 TCAATCCATC
Statistics
Matches: 267, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
181 264 0.99
182 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (181 bp):
ATAAGATTCGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAC
CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAG
ATAAGATCTACAATTTATAGCTTCAATCCGTTCCACTACAACTTCAGGGAA
Found at i:60519704 original size:44 final size:44
Alignment explanation
Indices: 60519575--60519886 Score: 222
Period size: 44 Copynumber: 7.0 Consensus size: 44
60519565 GATCTACCAT
* * ** * *
60519575 TTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGAT
1 TTATAACTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGAC
* * * *
60519619 TCTCTATCTTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGAC
1 T-TATAACTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGAC
* * *
60519664 TTATAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG-G
1 TTATAACTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGAC
* * * *
60519707 TT-T-GCTAT-GATCTGCTCTACTGTAACTTCAGAGAGATAAGATC
1 TTATAACT-TCAATCTGCTCCACTGTAACTTCAGGGAGATAAGA-C
* * * *
60519750 TGTAATTTATAGCTTCAATCCGTTCCACTGTAACTTCAGTGAAATAAGA-
1 T-T-A--TA-A-CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGAC
* * * * * *
60519799 TTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAGTGAGATAAGAC
1 TT--ATAACTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGAC
*
60519845 -TAGTAACTTCAACCTGCTCCACTGTAACTTCAGGGAGATAAG
1 TTA-TAACTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAG
60519887 GTTTGCTATG
Statistics
Matches: 206, Mismatches: 46, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
41 29 0.14
42 2 0.01
43 3 0.01
44 70 0.34
45 67 0.33
47 2 0.01
48 2 0.01
49 1 0.00
50 1 0.00
51 29 0.14
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (44 bp):
TTATAACTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGAC
Found at i:60522616 original size:43 final size:43
Alignment explanation
Indices: 60522531--60522644 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
60522521 CTCTTACAAA
* * *
60522531 GCCAACGTTCCAGAC-GTGGTCTTACATGTAATCACATATCGAT
1 GCCAACGTCCCAGACAG-GGTCTTACACGTAAACACATATCGAT
* *
60522574 G-CTACTGTCCCAGATAGGGTCTTACACGTAAACACA-AGTCGAT
1 GCCAAC-GTCCCAGACAGGGTCTTACACGTAAACACATA-TCGAT
*
60522617 GCCAACGTCCCAGACATGGTCTTACACG
1 GCCAACGTCCCAGACAGGGTCTTACACG
60522645 ATAACATATA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
42 4 0.07
43 51 0.86
44 4 0.07
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (43 bp):
GCCAACGTCCCAGACAGGGTCTTACACGTAAACACATATCGAT
Found at i:60524444 original size:20 final size:19
Alignment explanation
Indices: 60524419--60524464 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
60524409 CCTTAGCCTC
60524419 TCTTTTTTCTTTTC-TCTTT
1 TCTTTTTTC-TTTCATCTTT
60524438 TCTTTTTTCTTTCATTCTTT
1 TCTTTTTTCTTTCA-TCTTT
60524458 TCTTTTT
1 TCTTTTT
60524465 AATTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (19 bp):
TCTTTTTTCTTTCATCTTT
Found at i:60524498 original size:20 final size:20
Alignment explanation
Indices: 60524455--60524497 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
60524445 TCTTTCATTC
*
60524455 TTTTCTTTTTAATTTTTTAA
1 TTTTCTTTTTAATTTTTCAA
*
60524475 TTTTCTTTTTCATTTTTC-A
1 TTTTCTTTTTAATTTTTCAA
60524494 TTTT
1 TTTT
60524498 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTCTTTTTAATTTTTCAA
Found at i:60525824 original size:16 final size:16
Alignment explanation
Indices: 60525803--60525840 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
60525793 TTAGCCCCAT
*
60525803 GACCCGCGCGCGACTC
1 GACCCGCGCGCGACCC
60525819 GACCCGCGCGCGACCC
1 GACCCGCGCGCGACCC
60525835 GACCCG
1 GACCCG
60525841 TTCTAGGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.13, C:0.53, G:0.32, T:0.03
Consensus pattern (16 bp):
GACCCGCGCGCGACCC
Found at i:60526267 original size:25 final size:23
Alignment explanation
Indices: 60526203--60526267 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
60526193 CCTTATTAGA
*
60526203 ATTATT-TTATCATTAGATTAATT
1 ATTATTATTA-CATTATATTAATT
60526226 ATT-TTAATTACTATTATATTACATT
1 ATTATT-ATTAC-ATTATATTA-ATT
60526251 ATTATTATTACAGTTAT
1 ATTATTATTACA-TTAT
60526268 GACTTACTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
22 2 0.06
23 4 0.11
24 12 0.34
25 15 0.43
26 2 0.06
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
ATTATTATTACATTATATTAATT
Found at i:60527030 original size:107 final size:107
Alignment explanation
Indices: 60526902--60527108 Score: 378
Period size: 107 Copynumber: 1.9 Consensus size: 107
60526892 AAAGGAAGGT
*
60526902 TTTTCTAAATAAGGCAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
1 TTTTCTAAATAAGACAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
60526967 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAGGA
66 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAGGA
* *
60527009 TTTTCTAAATAAGACAATATTTTGTGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTT
1 TTTTCTAAATAAGACAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
*
60527074 TCGATTTCTCGTTCGACTAAATAGCCAAATATCCT
66 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCT
60527109 CTTAAAACAT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 96 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (107 bp):
TTTTCTAAATAAGACAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAGGA
Found at i:60532982 original size:12 final size:12
Alignment explanation
Indices: 60532965--60532990 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60532955 CTCTCTAGAA
60532965 TCCGGCCAGGGG
1 TCCGGCCAGGGG
60532977 TCCGGCCAGGGG
1 TCCGGCCAGGGG
60532989 TC
1 TC
60532991 ACCGCACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.35, G:0.46, T:0.12
Consensus pattern (12 bp):
TCCGGCCAGGGG
Found at i:60534817 original size:151 final size:151
Alignment explanation
Indices: 60534543--60534842 Score: 415
Period size: 151 Copynumber: 2.0 Consensus size: 151
60534533 GAGATCTATA
* * *
60534543 TGAAATTGTGAATAATGTGGATTCGGGCGCTGGTCATAAGTTCTACCAGTGGCTGAGTATACCGA
1 TGAAACTGTGAATAATGTGAACTCGGGCGCTGGTCATAAGTTCTACCAGTGGCTGAGTATACCGA
* * * * * *
60534608 CATATGTTGCGGATACCTGATAGCTTGTGTGAGTAGCACTGAGTAGTAACGAATGACTGATAGCT
66 CATATGTTGCGGATACCTGACAGCTTGTGTGAGCAGCACTGAATAGTAACAAAAGACTGACAGCT
*
60534673 TGTGTGAGCAGGCCCGTGATG
131 TGTGTGAGCAGACCCGTGATG
* ** *
60534694 TGAAACTGTGATTAATGTGAACTCGGGTTCTGGTCTTAAGTTCTACCTA-TGGCT-AGGTATACC
1 TGAAACTGTGAATAATGTGAACTCGGGCGCTGGTCATAAGTTCTACC-AGTGGCTGA-GTATACC
* * *
60534757 GGCATATGTTGGGGATACCTGACAGCTTGTGTGAGCAGCACTGAATAGTAATAAAAGACTGACAG
64 GACATATGTTGCGGATACCTGACAGCTTGTGTGAGCAGCACTGAATAGTAACAAAAGACTGACAG
60534822 CTTGTGTGAGCAGACCCGTGA
129 CTTGTGTGAGCAGACCCGTGA
60534843 AAGTGAATAG
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
150 1 0.01
151 128 0.98
152 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (151 bp):
TGAAACTGTGAATAATGTGAACTCGGGCGCTGGTCATAAGTTCTACCAGTGGCTGAGTATACCGA
CATATGTTGCGGATACCTGACAGCTTGTGTGAGCAGCACTGAATAGTAACAAAAGACTGACAGCT
TGTGTGAGCAGACCCGTGATG
Found at i:60539187 original size:42 final size:41
Alignment explanation
Indices: 60539079--60539263 Score: 183
Period size: 43 Copynumber: 4.4 Consensus size: 41
60539069 AACGTTTACA
*
60539079 GAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTC
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTC
* *
60539120 GAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTG
1 GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTC
* * **
60539161 GTAAAAAAAGCCGCTATAGATCATGTTCTTTAGTAGCGCTTTC
1 G-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTC
* * * * * *
60539204 -ATCATAAACGCCGCGAAAGGTAATGTTCTTTACCGGCGCTTTT
1 GA--AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTC
*
60539247 GTAAAAAACGCCACTAA
1 G-AAAAAACGCCGCTAA
60539264 TTTTGGGGTT
Statistics
Matches: 116, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
41 40 0.34
42 32 0.28
43 43 0.37
45 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (41 bp):
GAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTC
Done.