Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
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: 5677467
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 24
Found at i:4567739 original size:17 final size:17
Alignment explanation
Indices: 4567709--4567743 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4567699 TGTTATAAAA
*
4567709 TATATATTTGTTATAAT
1 TATATATTTATTATAAT
*
4567726 TATATTTTTATTATAAT
1 TATATATTTATTATAAT
4567743 T
1 T
4567744 TGATAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TATATATTTATTATAAT
Found at i:4569004 original size:19 final size:18
Alignment explanation
Indices: 4568959--4569023 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 18
4568949 TTCACAGCTC
4568959 TAAATTTATTATATTA-T
1 TAAATTTATTATATTATT
4568976 TAGAATTTTATGTATATTATT
1 TA-AA-TTTAT-TATATTATT
*
4568997 TAAATTTATTTATGTTATT
1 TAAATTTA-TTATATTATT
*
4569016 TAATTTTA
1 TAAATTTA
4569024 GCTTATTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 2 0.05
18 2 0.05
19 24 0.59
20 10 0.24
21 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
TAAATTTATTATATTATT
Found at i:4573124 original size:13 final size:14
Alignment explanation
Indices: 4573100--4573132 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
4573090 TTATTATAAA
4573100 GATTTTTAATACAC
1 GATTTTTAATACAC
4573114 GATTTTT-ATACAC
1 GATTTTTAATACAC
4573127 GATTTT
1 GATTTT
4573133 ATCATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (14 bp):
GATTTTTAATACAC
Found at i:4573233 original size:3 final size:3
Alignment explanation
Indices: 4573225--4573262 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4573215 AATATTATAC
4573225 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4573263 TTAAGAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4573387 original size:23 final size:23
Alignment explanation
Indices: 4573346--4573395 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
4573336 ATTTTCTTTA
4573346 ATATTTAATCTATTGTAATATTTT
1 ATATTTAATCTATTGTAATA-TTT
* *
4573370 ATATTTTAT-TATTTTAATATTT
1 ATATTTAATCTATTGTAATATTT
4573392 ATAT
1 ATAT
4573396 GAATCAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 7 0.29
23 9 0.38
24 8 0.33
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
ATATTTAATCTATTGTAATATTT
Found at i:4573528 original size:18 final size:17
Alignment explanation
Indices: 4573491--4573543 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
4573481 CTATATTTTA
4573491 TTTTAAAGGAAATTGAT
1 TTTTAAAGGAAATTGAT
4573508 TTTTAAAGGGAAATTTG-T
1 TTTTAAA-GGAAA-TTGAT
* *
4573526 TTTTAGA-GAAATTTAT
1 TTTTAAAGGAAATTGAT
4573542 TT
1 TT
4573544 GTATTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 2 0.06
16 7 0.23
17 7 0.23
18 12 0.39
19 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (17 bp):
TTTTAAAGGAAATTGAT
Found at i:4576893 original size:193 final size:190
Alignment explanation
Indices: 4576568--4576960 Score: 495
Period size: 193 Copynumber: 2.1 Consensus size: 190
4576558 ATTATATATG
* * *
4576568 GTGACGTTATGCATAATCATCATTAATAATATTATTAGGTAACGATATATGTCACTGAAAATGTG
1 GTGACGTTATGCATAAACATCATTAATAATATTATTAGGTAACGATATATGCCACTAAAAATGTG
* * **
4576633 ATAATATCTTTTTCGTCACATATAAGTTGATTTTAATGCATTATTTGTGACAATATAAACAATCA
66 ACAATATCTATTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAACAATCA
* *
4576698 ATAAC-ATAATCTTA-TTAATTTAGTGACGTAACCAACTGTCATAGAATATAAATTATAAA
131 ATAACGA-AATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAA
* * *
4576757 GTGACGTTATGCATAAACGTCATTCATAATATTATTAGGTAACATTTATATTATGCCACTAAAAA
1 GTGACGTTATGCATAAACATCATTAATAATATTATTAGGTAAC---GATA-TATGCCACTAAAAA
* * * *
4576822 TTTGACAATATCTATTTCGTCACATATATGTTGATTTTAATGTATTATCCGTGACGATATAAATC
62 TGTGACAATATCTATTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAA-C
* ** ** * * *
4576887 -ATCAATAACGAAATTTTACATAATTTAGTGACATAATTAGTTGTCATTGAATATTAATTATATA
126 AATCAATAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAA
4576951 GTGACGTTAT
1 GTGACGTTAT
4576961 ATATAAATGT
Statistics
Matches: 173, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
189 40 0.23
192 3 0.02
193 82 0.47
194 48 0.28
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (190 bp):
GTGACGTTATGCATAAACATCATTAATAATATTATTAGGTAACGATATATGCCACTAAAAATGTG
ACAATATCTATTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAACAATCA
ATAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAA
Found at i:4577013 original size:193 final size:192
Alignment explanation
Indices: 4576620--4577042 Score: 465
Period size: 193 Copynumber: 2.2 Consensus size: 192
4576610 CGATATATGT
* **
4576620 CACTGAAAATGTGATAATATCTTTTTCGTCACATATAAGTTGATTTTAATGCATTATTTGTGACA
1 CACTAAAAATGTGATAATATC-TTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACA
* *
4576685 ATATAAACAATCAATAACATAATCTTATTAATTTAGTGACGTAACCAACTGTCATAGAATATAAA
65 ATATAAACAATCAATAACATAATCTTAATAATTTAGTGACATAACCAACTGTCATAGAATATAAA
* * * * * * *
4576750 TTATAAAGTGACGTTATGCATAAACGTCATTCATAATATTATTAGGTAACATTTATATTATGC
130 TTATAAAGTGACGTTATACATAAACGTCATCCATAATACTATTAGGTAACATATAGACTACGC
* * * * *
4576813 CACTAAAAATTTGACAATATCTATTTCGTCACATATATGTTGATTTTAATGTATTATCCGTGACG
1 CACTAAAAATGTGATAATATCT-TTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACA
* ** ** *
4576878 ATATAAATC-ATCAATAACGA-AATTTTACATAATTTAGTGACATAATTAGTTGTCATTGAATAT
65 ATATAAA-CAATCAATAAC-ATAATCTTA-ATAATTTAGTGACATAACCAACTGTCATAGAATAT
* * * * ** *
4576941 TAATTATATAGTGACGTTATATATAAATGTCATCCATGCTACTATTAGGTGACA-ATAGACTACG
127 AAATTATAAAGTGACGTTATACATAAACGTCATCCATAATACTATTAGGTAACATATAGACTACG
*
4577005 T
192 C
* * *
4577006 TACTAAAAATGTGATAATTTTCTTTTCGTCACGTATA
1 CACTAAAAATGTGATAA-TATCTTTTCGTCACATATA
4577043 CAATGAAATT
Statistics
Matches: 189, Mismatches: 36, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
192 1 0.01
193 110 0.58
194 78 0.41
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (192 bp):
CACTAAAAATGTGATAATATCTTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAA
TATAAACAATCAATAACATAATCTTAATAATTTAGTGACATAACCAACTGTCATAGAATATAAAT
TATAAAGTGACGTTATACATAAACGTCATCCATAATACTATTAGGTAACATATAGACTACGC
Found at i:4584166 original size:3 final size:3
Alignment explanation
Indices: 4584135--4584186 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
4584125 TAAACAAAAT
* * *
4584135 TAA TAA TAT TAA T-A TAA TAT TAC TAA TAA TAA -ATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
4584179 TAA TAA TA
1 TAA TAA TA
4584187 TTTTTTTAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
2 3 0.07
3 37 0.90
4 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:4584697 original size:128 final size:124
Alignment explanation
Indices: 4584499--4584938 Score: 493
Period size: 124 Copynumber: 3.5 Consensus size: 124
4584489 AGGACGACTA
* * * * *
4584499 GTTAT-CTGGGTTGACACAACTCCTACATAATGAGGATATTTGGTCGGGGGATGACACGGT-TTC
1 GTTATCCTGGGTTGACACAACTCCTACGTGATGAGGAGATCTGGTC-GGGGATGACAC--TACTC
* * * * *
4584562 -TA-TATGATGAGGACGGCAT-GCCATTTAAGGGTGATAACACAATTCCTACGTGATGAGGACGA
63 ATACTATGAT-A--A-GTCATGGCCATCTAAGGGTGATAACACTACTCATAC-T-ATGAGGA--A
4584624 -CTT-
120 TCTTG
* * *
4584627 GTTAT-CTGGGTTGACACAGCTCCTACGTGATAAGGAGATCTGGTCGGGGATGAAACTACTCATA
1 GTTATCCTGGGTTGACACAACTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACTACTCATA
* * * *
4584691 CCATGATAAGTTATGGCCATCTAAGGGTGATAACATTACTCATACTATGATGAATCTTG
66 CTATGATAAGTCATGGCCATCTAAGGGTGATAACACTACTCATACTATGAGGAATCTTG
* *
4584750 GTTATCCAT-GGTTGACACAGCTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACTGCTCAT
1 GTTATCC-TGGGTTGACACAACTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACTACTCAT
* * *
4584814 ACTATGATAAGTCTTGGCCATCTAAGGGTGATAACACTGCTCATACTATGATGAATCTTG
65 ACTATGATAAGTCATGGCCATCTAAGGGTGATAACACTACTCATACTATGAGGAATCTTG
* *
4584874 GTTATCCAGGGTTGACACAACTCCTACGTGATGAGGAGATCTGGTCGGGGTTGACACTACTCATA
1 GTTATCCTGGGTTGACACAACTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACTACTCATA
4584939 TGCAATGAGT
Statistics
Matches: 274, Mismatches: 29, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
121 1 0.00
122 3 0.01
123 11 0.04
124 172 0.63
125 28 0.10
126 2 0.01
127 13 0.05
128 44 0.16
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (124 bp):
GTTATCCTGGGTTGACACAACTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACTACTCATA
CTATGATAAGTCATGGCCATCTAAGGGTGATAACACTACTCATACTATGAGGAATCTTG
Found at i:4584779 original size:124 final size:124
Alignment explanation
Indices: 4584634--4584938 Score: 513
Period size: 124 Copynumber: 2.5 Consensus size: 124
4584624 CTTGTTATCT
* *
4584634 GGGTTGACACAGCTCCTACGTGATAAGGAGATCTGGTCGGGGATGAAACTACTCATACCATGATA
1 GGGTTGACACAGCTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACTACTCATACCATGATA
*
4584699 AGT-TATGGCCATCTAAGGGTGATAACATTACTCATACTATGATGAATCTTGGTTATCCA
66 AGTCT-TGGCCATCTAAGGGTGATAACACTACTCATACTATGATGAATCTTGGTTATCCA
* * *
4584758 TGGTTGACACAGCTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACTGCTCATACTATGATA
1 GGGTTGACACAGCTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACTACTCATACCATGATA
*
4584823 AGTCTTGGCCATCTAAGGGTGATAACACTGCTCATACTATGATGAATCTTGGTTATCCA
66 AGTCTTGGCCATCTAAGGGTGATAACACTACTCATACTATGATGAATCTTGGTTATCCA
* *
4584882 GGGTTGACACAACTCCTACGTGATGAGGAGATCTGGTCGGGGTTGACACTACTCATA
1 GGGTTGACACAGCTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACTACTCATA
4584939 TGCAATGAGT
Statistics
Matches: 169, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
124 168 0.99
125 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (124 bp):
GGGTTGACACAGCTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACTACTCATACCATGATA
AGTCTTGGCCATCTAAGGGTGATAACACTACTCATACTATGATGAATCTTGGTTATCCA
Found at i:4585107 original size:37 final size:37
Alignment explanation
Indices: 4585066--4585137 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
4585056 GATTCTTTTA
*
4585066 TGTCTCAAATAAGACAAAATTTGTTTT-GAGAGAAAAT
1 TGTCTCAAACAAGACAAAATTT-TTTTCGAGAGAAAAT
* * *
4585103 TGTCTCAAGCGAGACAACATTTTTTTCGAGAGAAA
1 TGTCTCAAACAAGACAAAATTTTTTTCGAGAGAAA
4585138 CAACATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 4 0.13
37 26 0.87
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (37 bp):
TGTCTCAAACAAGACAAAATTTTTTTCGAGAGAAAAT
Found at i:4585259 original size:32 final size:32
Alignment explanation
Indices: 4585218--4585304 Score: 129
Period size: 32 Copynumber: 2.7 Consensus size: 32
4585208 TTTGCATCAG
** *
4585218 GATGTTGAATCCCCAAAGATGCCTCAATATTC
1 GATGTTGAATCTTCAAAGATGCCTCAACATTC
* *
4585250 GATGTTGAATATTCAAAGATGCCTCAACATTT
1 GATGTTGAATCTTCAAAGATGCCTCAACATTC
4585282 GATGTTGAATCTTCAAAGATGCC
1 GATGTTGAATCTTCAAAGATGCC
4585305 CTTATTTCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (32 bp):
GATGTTGAATCTTCAAAGATGCCTCAACATTC
Found at i:4586373 original size:24 final size:24
Alignment explanation
Indices: 4586341--4586415 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 24
4586331 GCTTCTTATC
*
4586341 TTTGCTTTTATTTGCTTTTTCTTTA
1 TTTGCTTTT-TTTGCTTTTTCTCTA
* *
4586366 TTT-CTTTTTTTTCCTTTTCTCTA
1 TTTGCTTTTTTTGCTTTTTCTCTA
4586389 TTTGCTCTTTGTTTGCTTCTTTTCTCT
1 TTTGCT-TTT-TTTGC-T-TTTTCTCT
4586416 TCATTTTGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
23 15 0.38
24 7 0.17
25 6 0.15
26 4 0.10
28 8 0.20
ACGTcount: A:0.04, C:0.19, G:0.07, T:0.71
Consensus pattern (24 bp):
TTTGCTTTTTTTGCTTTTTCTCTA
Found at i:4591483 original size:3 final size:3
Alignment explanation
Indices: 4591475--4591510 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
4591465 TAAACAAAAT
4591475 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TA
4591511 TATATTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4592641 original size:22 final size:22
Alignment explanation
Indices: 4592613--4592666 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
4592603 CTTTCATAAC
*
4592613 TCGTATGAGGTTCAATCTAATT
1 TCGTATGAGGTGCAATCTAATT
* *
4592635 TCGTATGAGGAGCAGTCTAATT
1 TCGTATGAGGTGCAATCTAATT
*
4592657 T-TTATGAGGT
1 TCGTATGAGGT
4592667 ACTCAGTTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (22 bp):
TCGTATGAGGTGCAATCTAATT
Found at i:4595530 original size:18 final size:18
Alignment explanation
Indices: 4595504--4595568 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
4595494 ATGCAAAATA
*
4595504 GGTATCAATACCCAAAGG
1 GGTACCAATACCCAAAGG
4595522 GGTACCAATACCCAAAGG
1 GGTACCAATACCCAAAGG
*
4595540 GGTACCAATACCCATAGG
1 GGTACCAATACCCAAAGG
*
4595558 GGTTCCAATAC
1 GGTACCAATAC
4595569 TACTTTACAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (18 bp):
GGTACCAATACCCAAAGG
Found at i:4597509 original size:19 final size:18
Alignment explanation
Indices: 4597485--4597520 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
4597475 TTGGAATGAT
4597485 TTGATTTTGAAAGAAAAAG
1 TTGATTTTGAAA-AAAAAG
4597504 TTGATTTTGAAAAAAAA
1 TTGATTTTGAAAAAAAA
4597521 TGAATCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (18 bp):
TTGATTTTGAAAAAAAAG
Found at i:4603424 original size:9 final size:8
Alignment explanation
Indices: 4603407--4603433 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
4603397 GGATTAAGGG
4603407 AATAAAAA
1 AATAAAAA
4603415 AATAAAAA
1 AATAAAAA
4603423 AATAAAAA
1 AATAAAAA
4603431 AAT
1 AAT
4603434 GAGGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AATAAAAA
Found at i:4603682 original size:19 final size:19
Alignment explanation
Indices: 4603658--4603698 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4603648 GGTTGGATTG
4603658 AAATGAAACAAAAAT-TAAA
1 AAATGAAA-AAAAATATAAA
*
4603677 AAATGATAAAAAATATAAA
1 AAATGAAAAAAAATATAAA
4603696 AAA
1 AAA
4603699 AAAATATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (19 bp):
AAATGAAAAAAAATATAAA
Found at i:4604510 original size:59 final size:60
Alignment explanation
Indices: 4604393--4604517 Score: 171
Period size: 59 Copynumber: 2.1 Consensus size: 60
4604383 TTAGAACTTG
* *
4604393 ACTCGAACTCGAAAAGGCTCGAACTCAAAAAAAAATTCAAGAACTCGATTCAAACTCGAT
1 ACTCAAACACGAAAAGGCTCGAACTCAAAAAAAAATTCAAGAACTCGATTCAAACTCGAT
* ** * * *
4604453 ACTCAAACACGAAAAGGCTCGAACTC-GAAAAATTTTCGAGAACTTGATTCAAGCTCGAT
1 ACTCAAACACGAAAAGGCTCGAACTCAAAAAAAAATTCAAGAACTCGATTCAAACTCGAT
4604512 ACTCAA
1 ACTCAA
4604518 GCTCGAGGAC
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 33 0.58
60 24 0.42
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.20
Consensus pattern (60 bp):
ACTCAAACACGAAAAGGCTCGAACTCAAAAAAAAATTCAAGAACTCGATTCAAACTCGAT
Found at i:4605207 original size:7 final size:7
Alignment explanation
Indices: 4605191--4605238 Score: 80
Period size: 7 Copynumber: 7.0 Consensus size: 7
4605181 TCACATAATT
*
4605191 GGGTTAA
1 GGGTTTA
4605198 GGGTTTA
1 GGGTTTA
4605205 GGGTTTA
1 GGGTTTA
4605212 GGGTTTA
1 GGGTTTA
4605219 GGGTTTA
1 GGGTTTA
4605226 -GGTTTA
1 GGGTTTA
4605232 GGGTTTA
1 GGGTTTA
4605239 TTGCAAAGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
6 6 0.15
7 33 0.85
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:4605419 original size:11 final size:11
Alignment explanation
Indices: 4605403--4605465 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
4605393 GTATTATAGA
4605403 ATTTTTAATAT
1 ATTTTTAATAT
4605414 ATTTTTAA-A-
1 ATTTTTAATAT
4605423 ATTTTATAAT-T
1 ATTTT-TAATAT
*** * *
4605434 ATCAATAGTGT
1 ATTTTTAATAT
4605445 ATTTTTAATAT
1 ATTTTTAATAT
4605456 ATTTTTAATA
1 ATTTTTAATA
4605466 ATGTAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:4606499 original size:14 final size:14
Alignment explanation
Indices: 4606464--4606505 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 14
4606454 TAATTACAAA
4606464 TTTAACTTTTAAATTT
1 TTTAA-TTTT-AATTT
4606480 TATTAATTTTAATTT
1 T-TTAATTTTAATTT
4606495 TTTAATTTTAA
1 TTTAATTTTAA
4606506 ATTAAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 10 0.40
15 6 0.24
16 5 0.20
17 4 0.16
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATTTTAATTT
Found at i:4606963 original size:23 final size:21
Alignment explanation
Indices: 4606923--4606972 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 21
4606913 ATATATTTTT
*
4606923 TAAAATATATAAAATAAATAA
1 TAAAATATATAAAATAAAGAA
* *
4606944 TAAAATATATCAATATTAAAGAT
1 TAAAATATAT-AA-AATAAAGAA
4606967 TAAAAT
1 TAAAAT
4606973 TCTCTATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.42
22 2 0.08
23 12 0.50
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
TAAAATATATAAAATAAAGAA
Found at i:4607305 original size:3 final size:3
Alignment explanation
Indices: 4607254--4607288 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
4607244 CCCATTTTAT
4607254 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4607289 ATAATAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4607313 original size:9 final size:9
Alignment explanation
Indices: 4607263--4607314 Score: 61
Period size: 9 Copynumber: 5.9 Consensus size: 9
4607253 TTTATTATAT
*
4607263 TATTATTAT
1 TATTATTAA
*
4607272 TATTATTAT
1 TATTATTAA
4607281 TATTATTAA
1 TATTATTAA
* *
4607290 TAATAATAA
1 TATTATTAA
4607299 -ATTATTAA
1 TATTATTAA
4607307 TATTATTA
1 TATTATTA
4607315 CAGGCCCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 6 0.16
9 31 0.84
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATTATTAA
Found at i:4608094 original size:26 final size:26
Alignment explanation
Indices: 4608059--4608117 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
4608049 AGAGAGAAGG
*
4608059 GAGAGAGTTTTCATCTCTCTCACTTA
1 GAGAGAGTTTGCATCTCTCTCACTTA
4608085 GAGAGAGTTTGCATCTCTCTCACTTA
1 GAGAGAGTTTGCATCTCTCTCACTTA
4608111 GAGAGAG
1 GAGAGAG
4608118 AATGAGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (26 bp):
GAGAGAGTTTGCATCTCTCTCACTTA
Found at i:4608652 original size:34 final size:36
Alignment explanation
Indices: 4608592--4608658 Score: 102
Period size: 34 Copynumber: 1.9 Consensus size: 36
4608582 TTAAAATTTT
*
4608592 TAATATTTATATCTATATTTTAATATTAGGAAATGA
1 TAATATTTATATCTATATTTTAATATTAAGAAATGA
*
4608628 TAATATTTAT-T-TATTTTTTAATATTAAGAAA
1 TAATATTTATATCTATATTTTAATATTAAGAAA
4608659 GGGGCTGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 18 0.62
35 1 0.03
36 10 0.34
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (36 bp):
TAATATTTATATCTATATTTTAATATTAAGAAATGA
Found at i:4619405 original size:13 final size:13
Alignment explanation
Indices: 4619356--4619397 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
4619346 TTATGCTTAA
4619356 AGAAGAAATAAAA-
1 AGAAGAAA-AAAAT
4619369 A-AAGAAAAAAAT
1 AGAAGAAAAAAAT
4619381 AGAAGAAAAAAAT
1 AGAAGAAAAAAAT
4619394 AGAA
1 AGAA
4619398 AATAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.15
12 7 0.26
13 16 0.59
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (13 bp):
AGAAGAAAAAAAT
Found at i:4620512 original size:26 final size:26
Alignment explanation
Indices: 4620453--4620513 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
4620443 AGAAGAACTC
4620453 ATCTGAAGAGGAAGAATAAGTTCATA
1 ATCTGAAGAGGAAGAATAAGTTCATA
*
4620479 ATCGGAAGAGGAAGAATAAGTTCATA
1 ATCTGAAGAGGAAGAATAAGTTCATA
*
4620505 ATTTGAAGA
1 ATCTGAAGA
4620514 ACTTATTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.23
Consensus pattern (26 bp):
ATCTGAAGAGGAAGAATAAGTTCATA
Found at i:4620529 original size:149 final size:149
Alignment explanation
Indices: 4620350--4620636 Score: 459
Period size: 149 Copynumber: 1.9 Consensus size: 149
4620340 GAAAAAAAAA
* * *
4620350 TTCATAATCTGAAGAACTTATTAAACCTTTTTCTTGACTCTATCGCAGAAGGAGATAGAGCAGCG
1 TTCATAATCTGAAGAACTTATTAAACCTTTTGCTTGAATCTATCGCAGAAGGAGATAGAGCAGCA
* * * *
4620415 GAACTGTTTCCAGATAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAATAAGTTCATAA
66 GAACTATTTCCAGACAGAGTTCGTAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAA
4620480 TCGGAAGAGGAAGAATAAG
131 TCGGAAGAGGAAGAATAAG
*
4620499 TTCATAATTTGAAGAACTTATTCAAA-CTTTTGCTTGAATCTATCGCAGAAGGAGATAGAGCAGC
1 TTCATAATCTGAAGAACTTATT-AAACCTTTTGCTTGAATCTATCGCAGAAGGAGATAGAGCAGC
* *
4620563 ATAACTATTTCCAGACAGAGTTCGTAATAAGAATAACTCATCTGAAGAAGAAGAAGAAGTTCATA
65 AGAACTATTTCCAGACAGAGTTCGTAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
*
4620628 ATCTGAAGA
130 ATCGGAAGA
4620637 ACTTATTCAA
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
149 123 0.98
150 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (149 bp):
TTCATAATCTGAAGAACTTATTAAACCTTTTGCTTGAATCTATCGCAGAAGGAGATAGAGCAGCA
GAACTATTTCCAGACAGAGTTCGTAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAA
TCGGAAGAGGAAGAATAAG
Found at i:4620702 original size:123 final size:125
Alignment explanation
Indices: 4620483--4620774 Score: 362
Period size: 123 Copynumber: 2.4 Consensus size: 125
4620473 TTCATAATCG
* * * * *
4620483 GAAGAGGAAGAATAAGTTCATAATTTGAAGAACTTATTCAAACTTTTGCTTGAATCTATCGCAGA
1 GAAGAAGAAGAAAAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCTTGAATCTATCACAGA
* * *** *
4620548 AGGAGATAGAGCAGCATAACTATTTCCAGAC-AG-AGTTCGTAATAAGAATAACTCATCT
66 AGGAGATAGAGCAACAAAACTATCAACAGACAAGAAGTTCGTAATAAGAAGAACTCATCT
* *
4620606 GAAGAAGAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCACAGA
1 GAAGAAGAAGAAAAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCTTGAATCTATCACAGA
4620671 AGGAGATAGAGCAACAGAAAC-ATCAACAGACAGAAGAAGTTCGTAATAAGAAGAACTCATCT
66 AGGAGATAGAGCAACA-AAACTATCAACAGAC--AAGAAGTTCGTAATAAGAAGAACTCATCT
** * *
4620733 GAAG-AG--GAAAAAGTTCATAATGAGAAGAACTTGTTCGACCTT
1 GAAGAAGAAGAAAAAGTTCATAATCTGAAGAACTTATTCAACCTT
4620775 AGCTTGATTC
Statistics
Matches: 147, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
123 81 0.55
124 34 0.23
126 4 0.03
127 28 0.19
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (125 bp):
GAAGAAGAAGAAAAAGTTCATAATCTGAAGAACTTATTCAACCTTTTGCTTGAATCTATCACAGA
AGGAGATAGAGCAACAAAACTATCAACAGACAAGAAGTTCGTAATAAGAAGAACTCATCT
Found at i:4621018 original size:137 final size:139
Alignment explanation
Indices: 4620701--4621050 Score: 435
Period size: 137 Copynumber: 2.6 Consensus size: 139
4620691 CATCAACAGA
*
4620701 CAGAAGAAGTTCGTAATAAGAAGAACTCATCTGAAGAGG-A-AA-AAGTTCATAATGAGAAGAAC
1 CAGAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAAC
* * * ** *
4620763 TTGTTCGACCTTAGCTTGATTCATCACCTATGGAGTTGAATAAAAGAATAACCTCACTTGAGGAT
66 TTGTTCAACCTTAGCTTAATTCATCACATATAAAGATGAATAAAAGAATAACCTCACTTGAGGAT
* *
4620828 TAACATTTC
131 CAACATTCC
* * *
4620837 CAGAGGAAGTTCATAATAAGAAGAACTCATTTGAAAAGGAAGAAGAAGTTCATAATGAGAAGAAC
1 CAGAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAAC
* * * * ** *
4620902 TTATTCAACCTT-GCCTTAATTCATCACATATAAAGATGAATCAACG-A-CACCTCTTTTGATGA
66 TTGTTCAACCTTAG-CTTAATTCATCACATATAAAGATGAATAAAAGAATAACCTCACTTGAGGA
**
4620964 TCAGTATTCC
130 TCAACATTCC
*
4620974 CAGAA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAA
1 CAGAAGA-AGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAA
4621038 CTTGTTCAACCTT
65 CTTGTTCAACCTT
4621051 TTGCTAGATT
Statistics
Matches: 183, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
136 36 0.20
137 88 0.48
138 4 0.02
139 55 0.30
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (139 bp):
CAGAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAAC
TTGTTCAACCTTAGCTTAATTCATCACATATAAAGATGAATAAAAGAATAACCTCACTTGAGGAT
CAACATTCC
Found at i:4621268 original size:8 final size:8
Alignment explanation
Indices: 4621252--4621290 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
4621242 TTTTTTAATT
4621252 TTATT-TA
1 TTATTATA
4621259 TTATTATA
1 TTATTATA
4621267 TTATTAGTA
1 TTATTA-TA
4621276 TTATTATA
1 TTATTATA
4621284 TTATTAT
1 TTATTAT
4621291 TAATAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 5 0.17
8 17 0.57
9 8 0.27
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (8 bp):
TTATTATA
Found at i:4621279 original size:17 final size:17
Alignment explanation
Indices: 4621257--4621289 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4621247 TAATTTTATT
4621257 TATTATTATATTATTAG
1 TATTATTATATTATTAG
4621274 TATTATTATATTATTA
1 TATTATTATATTATTA
4621290 TTAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTATTATATTATTAG
Found at i:4621307 original size:3 final size:3
Alignment explanation
Indices: 4621256--4621292 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
4621246 TTAATTTTAT
*
4621256 TTA TTA TTA -TA TTA TTA GTA TTA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4621293 ATAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4623928 original size:2 final size:2
Alignment explanation
Indices: 4623921--4623955 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
4623911 TTTGAGATTG
4623921 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4623956 CTTTTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4625979 original size:7 final size:7
Alignment explanation
Indices: 4625969--4626055 Score: 52
Period size: 7 Copynumber: 11.7 Consensus size: 7
4625959 AAGAAAGAAC
4625969 AAAAAAT
1 AAAAAAT
*
4625976 AAAATA-
1 AAAAAAT
4625982 AAAAAAT
1 AAAAAAT
4625989 AAGAAAAT
1 AA-AAAAT
4625997 AAAAAAT
1 AAAAAAT
*
4626004 ATTAAATATT
1 A--AAA-AAT
4626014 AAATAAAT
1 AAA-AAAT
* * *
4626022 CAGAAGT
1 AAAAAAT
4626029 AAAAAAAT
1 -AAAAAAT
4626037 AAAATAA-
1 AAAA-AAT
4626044 AAAAAAT
1 AAAAAAT
4626051 AAAAA
1 AAAAA
4626056 TTTTAAAAGT
Statistics
Matches: 61, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
6 7 0.11
7 29 0.48
8 18 0.30
9 4 0.07
10 3 0.05
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.18
Consensus pattern (7 bp):
AAAAAAT
Found at i:4625986 original size:14 final size:14
Alignment explanation
Indices: 4625969--4626054 Score: 66
Period size: 15 Copynumber: 5.8 Consensus size: 14
4625959 AAGAAAGAAC
4625969 AAAAAATAAAATAAA
1 AAAAAATAAAAT-AA
*
4625984 AAAATAAGAAAATAA
1 AAAA-AATAAAATAA
* *
4625999 AAAATATTAAATATTA
1 AAAA-AATAAA-ATAA
* *
4626015 AATAAATCAGAAGT-A
1 AAAAAAT-A-AAATAA
4626030 AAAAAATAAAATAA
1 AAAAAATAAAATAA
4626044 AAAAAATAAAA
1 AAAAAATAAAA
4626055 ATTTTAAAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
13 3 0.05
14 13 0.23
15 24 0.42
16 15 0.26
17 2 0.04
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAAAATAAAATAA
Found at i:4627346 original size:7 final size:7
Alignment explanation
Indices: 4627334--4627425 Score: 84
Period size: 7 Copynumber: 13.3 Consensus size: 7
4627324 ATAAAAAAAG
4627334 AATAATA
1 AATAATA
*
4627341 ATTAATA
1 AATAATA
4627348 AATAATA
1 AATAATA
4627355 AA-AATA
1 AATAATA
4627361 AA-AATA
1 AATAATA
*
4627367 AATATTA
1 AATAATA
*
4627374 AATATTA
1 AATAATA
4627381 AATAAATA
1 AAT-AATA
4627389 AATAAATA
1 AAT-AATA
4627397 AA-AATA
1 AATAATA
*
4627403 AATGAT-
1 AATAATA
*
4627409 ATTAATA
1 AATAATA
4627416 TAATAATA
1 -AATAATA
4627424 AA
1 AA
4627426 AAATCATTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
6 22 0.31
7 31 0.43
8 19 0.26
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:4627357 original size:26 final size:25
Alignment explanation
Indices: 4627322--4627403 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 25
4627312 CCTAAAACTA
*
4627322 AAATAA-AAAAAGAATAATAATTAAT
1 AAATAATAAAAA-AATAATAAATAAT
* *
4627347 AAATAATAAAAATAAAAATAAATATT
1 AAATAATAAAAA-AATAATAAATAAT
* *
4627373 AAATATTAAATAAATAAATAAATAA-
1 AAATAATAAAAAAAT-AATAAATAAT
4627398 AAATAA
1 AAATAA
4627404 ATGATATTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
25 13 0.28
26 33 0.72
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (25 bp):
AAATAATAAAAAAATAATAAATAAT
Found at i:4627368 original size:19 final size:19
Alignment explanation
Indices: 4627344--4627405 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 19
4627334 AATAATAATT
4627344 AATAAATAATAAAAATAAA
1 AATAAATAATAAAAATAAA
* * *
4627363 AATAAATATTAAATAT-TA
1 AATAAATAATAAAAATAAA
*
4627381 AATAAATAA-ATAAATAAA
1 AATAAATAATAAAAATAAA
4627399 AATAAAT
1 AATAAAT
4627406 GATATTAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
17 4 0.11
18 17 0.49
19 14 0.40
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAAATAATAAAAATAAA
Found at i:4627421 original size:36 final size:33
Alignment explanation
Indices: 4627321--4627429 Score: 98
Period size: 36 Copynumber: 3.2 Consensus size: 33
4627311 ACCTAAAACT
* *
4627321 AAAATAAAAAAAGAATA-ATAAT-TAATAAATAATA
1 AAAATAAAAATA-AATATTTAATATAATAAAT-A-A
*
4627355 AAAATAAAAATAAATATTAAATATTAAATAAATAA
1 AAAATAAAAATAAATATTTAATA-T-AATAAATAA
4627390 ATAAATAAAAATAAATGATATTAATATAAT-AATAA
1 A-AAATAAAAATAAAT-AT-TTAATATAATAAATAA
4627425 AAAAT
1 AAAAT
4627430 CATTTTAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
33 4 0.06
34 18 0.28
35 8 0.12
36 19 0.30
37 10 0.16
38 5 0.08
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (33 bp):
AAAATAAAAATAAATATTTAATATAATAAATAA
Found at i:4627437 original size:24 final size:23
Alignment explanation
Indices: 4627389--4627437 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
4627379 TAAATAAATA
*
4627389 AATAAATAAAAATAAATGATATT
1 AATAAATAAAAATAAATCATATT
*
4627412 AATATAATAATAAA-AAATCATTTT
1 AATA-AATAA-AAATAAATCATATT
4627436 AA
1 AA
4627438 AACTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 4 0.18
24 15 0.68
25 3 0.14
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AATAAATAAAAATAAATCATATT
Found at i:4627542 original size:34 final size:34
Alignment explanation
Indices: 4627502--4627567 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
4627492 TATATAAATA
*
4627502 TTCAAAAATAGTTTT-TAAAACTATATAATATACC
1 TTCAAAAATA-TTTTCCAAAACTATATAATATACC
*
4627536 TTCAAAAATATTTTCCAAAACTATATACTATA
1 TTCAAAAATATTTTCCAAAACTATATAATATA
4627568 TATATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.38
Consensus pattern (34 bp):
TTCAAAAATATTTTCCAAAACTATATAATATACC
Found at i:4627593 original size:37 final size:37
Alignment explanation
Indices: 4627486--4627858 Score: 167
Period size: 38 Copynumber: 9.7 Consensus size: 37
4627476 CCATATAATA
* *
4627486 TATATATATATAAATATTCAAAAATAGTTTTTAAAAC
1 TATATATATATATATATTCAAAAATATTTTTTAAAAC
** **
4627523 --TATATA-ATATACCTTCAAAAATATTTTCCAAAAC
1 TATATATATATATATATTCAAAAATATTTTTTAAAAC
*
4627557 TATATACTATATATATTTTC-AAAATATTTTTTAAAACC
1 TATATA-TATATATATATTCAAAAATATTTTTTAAAA-C
* * *
4627595 ATATTATATATATATATATATATATATATTCAAAATGTTTTTTTAAA-
1 -TA-TATATATATATATAT-T-CA-A-A---AATA--TTTTTTAAAAC
* ** *
4627642 AACTATATAT-TATATATATGTTTTCAAAATGTTTTTTAAAAAC
1 TA-TATATATATATAT--A---TTCAAAAATATTTTTTAAA-AC
* * *
4627685 TATATATTATATATATGTTTTC-AAAAT-GTTTTCAAAAC
1 TATATA-TATATATA--TATTCAAAAATATTTTTTAAAAC
* * **
4627723 AATATATTATATATATTTTCAAAAATATTTTCCAAAAC
1 TATATA-TATATATATATTCAAAAATATTTTTTAAAAC
* * *
4627761 TATATATTATACATATTTTC-AAAATATTTTTAAAAAC
1 TATATA-TATATATATATTCAAAAATATTTTTTAAAAC
* **
4627798 TATAT-TATATATATATTTC-AAAATGTTTTCAAAAAC
1 TATATATATATATATA-TTCAAAAATATTTTTTAAAAC
*
4627834 TATATAT-TATATATGTTTCAAAAAT
1 TATATATATATATAT-ATTCAAAAAT
4627859 GAGTTTTAAA
Statistics
Matches: 265, Mismatches: 37, Indels: 68
0.72 0.10 0.18
Matches are distributed among these distances:
34 22 0.08
35 14 0.05
36 42 0.16
37 47 0.18
38 52 0.20
39 19 0.07
40 10 0.04
41 10 0.04
42 5 0.02
43 7 0.03
44 5 0.02
45 5 0.02
46 10 0.04
47 5 0.02
48 1 0.00
49 10 0.04
50 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (37 bp):
TATATATATATATATATTCAAAAATATTTTTTAAAAC
Found at i:4627604 original size:2 final size:2
Alignment explanation
Indices: 4627595--4627623 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4627585 TTTTAAAACC
4627595 AT AT -T 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
4627624 TCAAAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4627620 original size:51 final size:48
Alignment explanation
Indices: 4627557--4627700 Score: 146
Period size: 43 Copynumber: 3.1 Consensus size: 48
4627547 TTTCCAAAAC
*
4627557 TATATACTATATATATTTTCAAAAT-ATTTTTTAAAACCATATTATATATATA
1 TATATACTATATATA--TTCAAAATGATTTTTTAAAAAC-TA-TATAT-TATA
*
4627609 TATATA-TATATATATTCAAAATGTTTTTTTAAAAAC--TATA-TAT-
1 TATATACTATATATATTCAAAATGATTTTTTAAAAACTATATATTATA
*
4627652 TATATA-TATGT-T-TTCAAAATG-TTTTTTAAAAACTATATATTATA
1 TATATACTATATATATTCAAAATGATTTTTTAAAAACTATATATTATA
4627696 TATAT
1 TATAT
4627701 GTTTTCAAAA
Statistics
Matches: 84, Mismatches: 3, Indels: 18
0.80 0.03 0.17
Matches are distributed among these distances:
40 12 0.14
41 9 0.11
42 5 0.06
43 13 0.15
44 8 0.10
46 4 0.05
49 8 0.10
50 11 0.13
51 8 0.10
52 6 0.07
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (48 bp):
TATATACTATATATATTCAAAATGATTTTTTAAAAACTATATATTATA
Found at i:4627628 original size:49 final size:47
Alignment explanation
Indices: 4627557--4627700 Score: 160
Period size: 49 Copynumber: 3.1 Consensus size: 47
4627547 TTTCCAAAAC
* *
4627557 TATATACTATATATATTTTCAAAAT-ATTTTTTAAAACCATATTATATATA
1 TATATA-TATATATATATTCAAAATGATTTTTTAAAAAC-TA-TATAT-TA
*
4627607 TATATATATATATATATTCAAAATGTTTTTTTAAAAAC--TATA-TA
1 TATATATATATATATATTCAAAATGATTTTTTAAAAACTATATATTA
*
4627651 T-TATATATATGT-T-TTCAAAATG-TTTTTTAAAAACTATATATTA
1 TATATATATATATATATTCAAAATGATTTTTTAAAAACTATATATTA
4627694 TATATAT
1 TATATAT
4627701 GTTTTCAAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
40 12 0.14
41 9 0.11
42 5 0.06
43 13 0.15
44 8 0.09
46 4 0.05
49 17 0.20
50 17 0.20
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (47 bp):
TATATATATATATATATTCAAAATGATTTTTTAAAAACTATATATTA
Found at i:4627649 original size:40 final size:38
Alignment explanation
Indices: 4627605--4627870 Score: 294
Period size: 38 Copynumber: 7.0 Consensus size: 38
4627595 ATATTATATA
*
4627605 TATATATATATATATATATTCAAAATGTTTTTTTAAAAAC
1 TATATATATATATATATTTTCAAAATG--TTTTTAAAAAC
*
4627645 TATATATTATATATATGTTTTCAAAATGTTTTTTAAAAAC
1 TATATA-TATATATATATTTTCAAAATG-TTTTTAAAAAC
* *
4627685 TATATATTATATATATGTTTTCAAAATG-TTTTCAAAAC
1 TATATA-TATATATATATTTTCAAAATGTTTTTAAAAAC
* * **
4627723 AATATAT-TATATATATTTTCAAAAATATTTTCCAAAAC
1 TATATATATATATATATTTTC-AAAATGTTTTTAAAAAC
* *
4627761 TATATAT-TATACATATTTTCAAAATATTTTTAAAAAC
1 TATATATATATATATATTTTCAAAATGTTTTTAAAAAC
*
4627798 TATAT-TATATATATA-TTTCAAAATGTTTTCAAAAAC
1 TATATATATATATATATTTTCAAAATGTTTTTAAAAAC
* *
4627834 TATATAT-TATATAT-GTTTCAAAAATGAGTTTTAAAAA
1 TATATATATATATATATTTTC-AAAATG-TTTTTAAAAA
4627871 AATCAAAAAC
Statistics
Matches: 202, Mismatches: 16, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
36 48 0.24
37 40 0.20
38 49 0.24
40 46 0.23
41 19 0.09
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (38 bp):
TATATATATATATATATTTTCAAAATGTTTTTAAAAAC
Found at i:4627698 original size:204 final size:202
Alignment explanation
Indices: 4627432--4627813 Score: 508
Period size: 204 Copynumber: 1.9 Consensus size: 202
4627422 TAAAAAATCA
* *
4627432 TTTTAAAACTATATATTATATGTTTTTAAAAATTGTTTTCAAAACCATATAATATATATATATAT
1 TTTTAAAACTATATATTATATATTTTTAAAAATTGTTTTCAAAAACATATAATATATATATATAT
*
4627497 AAATATTCAAAAATAGTTTTTAAAAC-TATA-TA-ATATACCTTCAAAAATATTTTCCAAAACTA
66 --ATATTC-AAAAT-GTTTTCAAAACATATATTATATATACCTTCAAAAATATTTTCCAAAACTA
* *
4627559 TATACTATATATATTTTCAAAATATTTTTTAAAACCATATTATATATATATATATATATATATAT
127 TATACTATACATATTTTCAAAATATTTTTAAAAACCATATTATATATATATATATATATATATAT
4627624 TCAAAATGTTT
192 TCAAAATGTTT
* *
4627635 TTTTAAAAACTATATATTATATATATGTTTTCAAAA-TGTTTTTTAAAAAC-TAT-ATAT-TATA
1 TTTT-AAAACTATATA-T-TATATAT-TTTTAAAAATTG-TTTTCAAAAACATATAATATATATA
* * **
4627696 TATATGTTTTCAAAATGTTTTCAAAACAATATATTATATATATTTTCAAAAATATTTTCCAAAAC
61 TATATATATTCAAAATGTTTTCAAAAC-ATATATTATATATACCTTCAAAAATATTTTCCAAAAC
* *
4627761 TATATATTATACATATTTTCAAAATATTTTTAAAAACTATATTATATATATAT
125 TATATACTATACATATTTTCAAAATATTTTTAAAAACCATATTATATATATAT
4627814 TTCAAAATGT
Statistics
Matches: 157, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
200 10 0.06
201 5 0.03
202 8 0.05
203 6 0.04
204 95 0.61
205 5 0.03
206 11 0.07
207 17 0.11
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.46
Consensus pattern (202 bp):
TTTTAAAACTATATATTATATATTTTTAAAAATTGTTTTCAAAAACATATAATATATATATATAT
ATATTCAAAATGTTTTCAAAACATATATTATATATACCTTCAAAAATATTTTCCAAAACTATATA
CTATACATATTTTCAAAATATTTTTAAAAACCATATTATATATATATATATATATATATATTCAA
AATGTTT
Found at i:4628867 original size:260 final size:260
Alignment explanation
Indices: 4628406--4628906 Score: 632
Period size: 260 Copynumber: 1.9 Consensus size: 260
4628396 ACAACTAACT
** * * *
4628406 CAGATCTCTTTCTTGACTTAAAGTCATTGGTTGAAACTTTGACCGGAAAGTAGTTATTCGCTGCT
1 CAGATCTCTTTCTTGACTTAAAGTCATTGGTTGAAACTTCAACCGGAAAGTAGTTACTCACGGCT
* *
4628471 ACAATGCGATTGATACACCCTCGAGCTGAATGGAATCGAACTCGAAAGTCTTCAATGACAGATAA
66 ACAATACGATTGATACACCATCGAGCTGAATGGAATCGAACTCGAAAGTCTTCAATGACAGATAA
* * * * * *
4628536 CCCTTCTCGCCTTGAGTTATGCTGTGAATTTGTTATGTCATTGAGCTAAATGGAATCGAACTCAA
131 CCCTTCTCGACTTAAGCTATGCTGTAAATTTGATATGCCATTGAGCTAAATGGAATCGAACTCAA
* *
4628601 AGGTTTTTGTTGACAGATAACCCTCCTCGCCTTGAATTATGTTGTACTAGATTGAGAGATTGCCC
196 AGGTTTTTATTGACAGATAACCCTCCTCGCCTTGAATTATGATGTACTAGATTGAGAGATTGCCC
*
4628666 CAGATCT-TCTTCTTGACTTAAAGATC-TTGGTTGAAACTTCAACCGGAAAGTAGTTCCTCACGG
1 CAGATCTCT-TTCTTGACTTAAAG-TCATTGGTTGAAACTTCAACCGGAAAGTAGTTACTCACGG
* *** * ***
4628729 CTACCATAC-AGTTGATATGTCATCGAGCTGAATGGAATCGAACTCGACAA-TTTTTGTTGACAG
64 CTACAATACGA-TTGATACACCATCGAGCTGAATGGAATCGAACTCGA-AAGTCTTCAATGACAG
* ** * * *
4628792 ATAGCTTTTCTCGACTTAAGCTATGCTGTAAATTTGATATGCCCTTGAGCTGAATGTAATCGAAC
127 ATAACCCTTCTCGACTTAAGCTATGCTGTAAATTTGATATGCCATTGAGCTAAATGGAATCGAAC
* * * *
4628857 TCAAAGGTTTTTATTGATAGATAACCCTTCTTGCCTTGAGTTATGATGTA
192 TCAAAGGTTTTTATTGACAGATAACCCTCCTCGCCTTGAATTATGATGTA
4628907 AATTTGAAAT
Statistics
Matches: 203, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
259 2 0.01
260 197 0.97
261 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (260 bp):
CAGATCTCTTTCTTGACTTAAAGTCATTGGTTGAAACTTCAACCGGAAAGTAGTTACTCACGGCT
ACAATACGATTGATACACCATCGAGCTGAATGGAATCGAACTCGAAAGTCTTCAATGACAGATAA
CCCTTCTCGACTTAAGCTATGCTGTAAATTTGATATGCCATTGAGCTAAATGGAATCGAACTCAA
AGGTTTTTATTGACAGATAACCCTCCTCGCCTTGAATTATGATGTACTAGATTGAGAGATTGCCC
Found at i:4628907 original size:85 final size:85
Alignment explanation
Indices: 4628753--4628981 Score: 248
Period size: 85 Copynumber: 2.7 Consensus size: 85
4628743 ATATGTCATC
** * * * * ** * * *
4628753 GAGCTGAATGGAATCGAACTCGACA-ATTTTTGTTGACAGATAGCTTTTCTCGACTTAAGCTATG
1 GAGCTGAATATAATCGAACTAGA-AGGTTTTAGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
* *
4628817 CTGTAAATTTGATATGCCCTT
65 ATGTAAATTTGAAATGCCCTT
* * *
4628838 GAGCTGAATGTAATCGAACTCA-AAGGTTTTTA-TTGATAGATAACCCTTCTTGCCTTGAGTTAT
1 GAGCTGAATATAATCGAACT-AGAAGG-TTTTAGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
*
4628901 GATGTAAATTTGAAATGTCCTT
64 GATGTAAATTTGAAATGCCCTT
*
4628923 GAGCTGAATATAATCGAACTAGAAGGTTTTAGTTGACATATAACCCTTCTCGCCTTGAG
1 GAGCTGAATATAATCGAACTAGAAGGTTTTAGTTGACAGATAACCCTTCTCGCCTTGAG
4628982 CTATATTGTA
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
84 7 0.06
85 109 0.91
86 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (85 bp):
GAGCTGAATATAATCGAACTAGAAGGTTTTAGTTGACAGATAACCCTTCTCGCCTTGAGTTATGA
TGTAAATTTGAAATGCCCTT
Found at i:4631831 original size:251 final size:251
Alignment explanation
Indices: 4631388--4631879 Score: 770
Period size: 251 Copynumber: 2.0 Consensus size: 251
4631378 GGTTTCATGA
* * *
4631388 GTTCCACCAGATATTGTGACACTACGTGGGTGTTAAAAAGTTGTTGATAAAGTTTTTTGTAGGTC
1 GTTCCACCAGATATGGTGACACTACGTAGGTGTCAAAAAGTTGTTGATAAAGTTTTTTGTAGGTC
* * * *
4631453 ATGAGAATAGGGTCGAAATGTTCCCTTTTCCTTTCCTTCTTAGGTTCTCTGGAATCTTGCCTAGA
66 ATGAGAATAGGGTCGAAATATTCCCTTTCCCTTTCATTCCTAGGTTCTCTGGAATCTTGCCTAGA
* ** *
4631518 AGTACTTGATGGTACAGTTGCAGTTGATTTTGGGTTGAAGATTATAACACCTTTATTAGTGTTGT
131 AGTACCTGATGGTACAACTGCAGATGATTTTGGGTTGAAGATTATAACACCTTTATTAGTGTTGT
* * *
4631583 GGGTGTTGACGTTGTTAATCTCTCCATCCCTCTTCTTAATAGGAGGGGCTTCATAG
196 AGATGTTGACGTTGTTAATCTCTCCATCCCTCTTCTTAATAAGAGGGGCTTCATAG
* *
4631639 GTTCCACCAGATATGGTGACACTACTTAGGTGTCAAAAAGTTGTTGATAAA-TTTATTTTTAGGT
1 GTTCCACCAGATATGGTGACACTACGTAGGTGTCAAAAAGTTGTTGATAAAGTTT-TTTGTAGGT
* * *
4631703 CATGGGAATAGGGTCGAAATATTCCCTTTCCCTTTCATTCCTAGGTTCTTTGGAATCTTGTCTAG
65 CATGAGAATAGGGTCGAAATATTCCCTTTCCCTTTCATTCCTAGGTTCTCTGGAATCTTGCCTAG
* *
4631768 AAGTACCTGATGGTACAACTGCAGATGATTTTGGGTTGGAGATTGTAACACCTTTATTAGTGTTG
130 AAGTACCTGATGGTACAACTGCAGATGATTTTGGGTTGAAGATTATAACACCTTTATTAGTGTTG
*
4631833 TAGATGTTGACGTTGTTAATCTCTCCATCCCTCTTCTTTATAAGAGG
195 TAGATGTTGACGTTGTTAATCTCTCCATCCCTCTTCTTAATAAGAGG
4631880 TTTCTTGCTT
Statistics
Matches: 218, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
250 3 0.01
251 215 0.99
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.38
Consensus pattern (251 bp):
GTTCCACCAGATATGGTGACACTACGTAGGTGTCAAAAAGTTGTTGATAAAGTTTTTTGTAGGTC
ATGAGAATAGGGTCGAAATATTCCCTTTCCCTTTCATTCCTAGGTTCTCTGGAATCTTGCCTAGA
AGTACCTGATGGTACAACTGCAGATGATTTTGGGTTGAAGATTATAACACCTTTATTAGTGTTGT
AGATGTTGACGTTGTTAATCTCTCCATCCCTCTTCTTAATAAGAGGGGCTTCATAG
Found at i:4634877 original size:7 final size:7
Alignment explanation
Indices: 4634867--4634897 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
4634857 AGAAAAAAAT
4634867 AAAATAA
1 AAAATAA
4634874 AAAATAA
1 AAAATAA
4634881 AAAGATAA
1 AAA-ATAA
4634889 AAAATAA
1 AAAATAA
4634896 AA
1 AA
4634898 TTTTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:4634888 original size:15 final size:15
Alignment explanation
Indices: 4634855--4634897 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
4634845 TACATAAATC
4634855 AAAGA-AAAAAAT--
1 AAAGATAAAAAATAA
4634867 AAA-ATAAAAAATAA
1 AAAGATAAAAAATAA
4634881 AAAGATAAAAAATAA
1 AAAGATAAAAAATAA
4634896 AA
1 AA
4634898 TTTTAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.04
12 10 0.37
14 3 0.11
15 13 0.48
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.12
Consensus pattern (15 bp):
AAAGATAAAAAATAA
Found at i:4636250 original size:38 final size:39
Alignment explanation
Indices: 4636156--4636247 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 39
4636146 CTAAAACAAA
*
4636156 AATAAAAAAGGAAT-AATAAATAATAAAAAATTATAATTAT
1 AATAAAAAA--AATAAAAAAATAATAAAAAATTATAATTAT
*
4636196 AATAAAAAAAATAAAAAAATAA-AAAAAATTATATTAATAT
1 AATAAAAAAAATAAAAAAATAATAAAAAATTATA--ATTAT
4636236 AATAACAAAAAA
1 AATAA-AAAAAA
4636248 AAATCATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
38 14 0.30
39 8 0.17
40 18 0.39
41 6 0.13
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.24
Consensus pattern (39 bp):
AATAAAAAAAATAAAAAAATAATAAAAAATTATAATTAT
Found at i:4636647 original size:39 final size:38
Alignment explanation
Indices: 4636254--4636660 Score: 322
Period size: 38 Copynumber: 10.7 Consensus size: 38
4636244 AAAAAAATCA
* *
4636254 TTTTT-AAAACTATATA-T-TATATGTTTTTAAAAAT-
1 TTTTTAAAAACTATATATTATATATATTTTTCAAAATG
* * * * **
4636288 TGTTTTCAAAACCATATAATATATATATTGTGAAAAATAG
1 T-TTTTAAAAACTATATATTATATATATTTTTCAAAAT-G
*
4636328 TTTTT-AAAAC--TATA-TA-ATATA-CTTTCAAAAAT-
1 TTTTTAAAAACTATATATTATATATATTTTTC-AAAATG
* *
4636360 ATTTCAAAAACTATATATTATATATA-TTTTCAAAATG
1 TTTTTAAAAACTATATATTATATATATTTTTCAAAATG
* *
4636397 TTTTTTAAAAACCATATATTATATATATATTTTCAAAATATT
1 -TTTTTAAAAACTATATATTATATATAT-TTTTC-AAA-ATG
*
4636439 TTTTTAAAAACTATATATTATATATATGTTTTGAAAATG
1 TTTTTAAAAACTATATATTATATATAT-TTTTCAAAATG
*
4636478 TTTTTTTTTAAAACTATATATTTGTATATATATGTTTTCAAAATG
1 ---TTTTTAAAAACTATATA--T-TATATATAT-TTTTCAAAATG
* *
4636523 -TTTTCAAAACTATATATTATATATA-TTTTCAAAAATA
1 TTTTTAAAAACTATATATTATATATATTTTTC-AAAATG
** * * *
4636560 TTTTCCAAAACTATATATTATACATA-TTATCAAAATA
1 TTTTTAAAAACTATATATTATATATATTTTTCAAAATG
4636597 TTTTTAAAAACTATATATTATATATATCTTTTCAAAATG
1 TTTTTAAAAACTATATATTATATATAT-TTTTCAAAATG
*** *
4636636 TTTTCGGAAACTACATATTATATAT
1 TTTTTAAAAACTATATATTATATAT
4636661 GTTTCAAAAA
Statistics
Matches: 310, Mismatches: 35, Indels: 51
0.78 0.09 0.13
Matches are distributed among these distances:
32 3 0.01
33 6 0.02
34 11 0.04
35 10 0.03
36 26 0.08
37 44 0.14
38 77 0.25
39 37 0.12
40 9 0.03
41 48 0.15
42 18 0.06
44 1 0.00
45 20 0.06
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (38 bp):
TTTTTAAAAACTATATATTATATATATTTTTCAAAATG
Found at i:4637637 original size:10 final size:10
Alignment explanation
Indices: 4637608--4637638 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4637598 AATCGAAGAT
*
4637608 TTTTTTATAT
1 TTTTTTATAA
4637618 TTTTTTATAA
1 TTTTTTATAA
4637628 TTTTTTATAA
1 TTTTTTATAA
4637638 T
1 T
4637639 CAAATAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:4642967 original size:46 final size:46
Alignment explanation
Indices: 4642898--4643069 Score: 290
Period size: 46 Copynumber: 3.7 Consensus size: 46
4642888 AAAAAATGCC
* ** * *
4642898 GTGGGATTCTGTCATTTGTATTGATAATTAAAACGTCAAAAGAGCT
1 GTGGGATTCTATCATTTCCATTGACAATTAAAACATCAAAAGAGCT
4642944 GTGGGATTCTATCATTTCCATTGACAATTAAAACATCAAAAGAGCT
1 GTGGGATTCTATCATTTCCATTGACAATTAAAACATCAAAAGAGCT
4642990 GTGGGATTCTATCATTTCCATTGACAATTAAAACATCAAAAGAGCT
1 GTGGGATTCTATCATTTCCATTGACAATTAAAACATCAAAAGAGCT
*
4643036 GTGGGATTCTATCATTTCCATTGATAATTAAAAC
1 GTGGGATTCTATCATTTCCATTGACAATTAAAAC
4643070 CTGTGTGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 120 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (46 bp):
GTGGGATTCTATCATTTCCATTGACAATTAAAACATCAAAAGAGCT
Found at i:4646469 original size:3 final size:3
Alignment explanation
Indices: 4646461--4646500 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
4646451 ATTAAGATTG
*
4646461 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATG ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4646501 ATCTGGGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:4653025 original size:12 final size:12
Alignment explanation
Indices: 4652994--4653027 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4652984 TAACGATATT
4652994 TTAAAATTTTAA
1 TTAAAATTTTAA
**
4653006 TTTTAATTTTAA
1 TTAAAATTTTAA
4653018 TTAAAATTTT
1 TTAAAATTTT
4653028 CTCATATCTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAAATTTTAA
Found at i:4653293 original size:15 final size:15
Alignment explanation
Indices: 4653275--4653329 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
4653265 ACGACGACGA
4653275 TGATGATGGTGGTTG
1 TGATGATGGTGGTTG
4653290 TGATGATCATGGTGGTTG
1 TGATG---ATGGTGGTTG
** *
4653308 TGATGATCATGGTGG
1 TGATGATGGTGGTTG
4653323 TGATGAT
1 TGATGAT
4653330 CATGGTGGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 19 0.56
18 15 0.44
ACGTcount: A:0.18, C:0.04, G:0.40, T:0.38
Consensus pattern (15 bp):
TGATGATGGTGGTTG
Found at i:4653330 original size:15 final size:15
Alignment explanation
Indices: 4653284--4653341 Score: 80
Period size: 15 Copynumber: 3.7 Consensus size: 15
4653274 ATGATGATGG
*
4653284 TGGTTGTGATGATCA
1 TGGTGGTGATGATCA
4653299 TGGTGGTTGTGATGATCA
1 TGGT-G--GTGATGATCA
4653317 TGGTGGTGATGATCA
1 TGGTGGTGATGATCA
4653332 TGGTGGTGAT
1 TGGTGGTGAT
4653342 AATGAAGGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
15 24 0.62
17 1 0.03
18 14 0.36
ACGTcount: A:0.17, C:0.05, G:0.40, T:0.38
Consensus pattern (15 bp):
TGGTGGTGATGATCA
Found at i:4653346 original size:18 final size:18
Alignment explanation
Indices: 4653273--4653338 Score: 102
Period size: 18 Copynumber: 3.8 Consensus size: 18
4653263 TGACGACGAC
*
4653273 GATGATGATGGTGGTTGT
1 GATGATCATGGTGGTTGT
4653291 GATGATCATGGTGGTTGT
1 GATGATCATGGTGGTTGT
4653309 GATGATCATGGT-G--GT
1 GATGATCATGGTGGTTGT
4653324 GATGATCATGGTGGT
1 GATGATCATGGTGGT
4653339 GATAATGAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
15 14 0.31
16 1 0.02
17 1 0.02
18 29 0.64
ACGTcount: A:0.18, C:0.05, G:0.41, T:0.36
Consensus pattern (18 bp):
GATGATCATGGTGGTTGT
Found at i:4654050 original size:19 final size:20
Alignment explanation
Indices: 4654006--4654050 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
4653996 ATTTGTTTTT
*
4654006 AATAAATTTTTATCTATGAA
1 AATAAATTTTTATCTATCAA
* *
4654026 ATTAAATTTTTAT-TTTCAA
1 AATAAATTTTTATCTATCAA
4654045 AATAAA
1 AATAAA
4654051 ATATTAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTATCTATCAA
Found at i:4654079 original size:14 final size:13
Alignment explanation
Indices: 4654051--4654088 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
4654041 TCAAAATAAA
4654051 ATATTAAAATAGT
1 ATATTAAAATAGT
*
4654064 ATATTAATATTAGT
1 ATATTAA-AATAGT
4654078 ATATTAAAATA
1 ATATTAAAATA
4654089 TAACTGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (13 bp):
ATATTAAAATAGT
Found at i:4654237 original size:18 final size:18
Alignment explanation
Indices: 4654216--4654250 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4654206 CTACAACTAA
4654216 AACAAAATCCGCAACCGC
1 AACAAAATCCGCAACCGC
4654234 AACAAAATCCGCAACCG
1 AACAAAATCCGCAACCG
4654251 TAATTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.37, G:0.11, T:0.06
Consensus pattern (18 bp):
AACAAAATCCGCAACCGC
Found at i:4658006 original size:3 final size:3
Alignment explanation
Indices: 4657940--4657995 Score: 64
Period size: 3 Copynumber: 19.3 Consensus size: 3
4657930 ATTTTACTTA
* *
4657940 ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT A-T ATT A-T ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
4657984 A-T ATT ATT ATT A
1 ATT ATT ATT ATT A
4657996 AATAATTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 6 0.13
3 36 0.80
4 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:4659384 original size:28 final size:27
Alignment explanation
Indices: 4659314--4659387 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 27
4659304 ATTTTAATCA
**
4659314 TTAAT-TTTTATTTTTGACTATGAATTT
1 TTAATATTTTATTTTAAACTAT-AATTT
4659341 TTAATATTTTACATTTTAAACTAT-ATTT
1 TTAATATTTT--ATTTTAAACTATAATTT
4659369 TTAATACCTTTTATTTTAA
1 TTAATA--TTTTATTTTAA
4659388 TCATTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
27 5 0.12
28 21 0.52
30 14 0.35
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (27 bp):
TTAATATTTTATTTTAAACTATAATTT
Found at i:4659645 original size:117 final size:118
Alignment explanation
Indices: 4659485--4659737 Score: 291
Period size: 118 Copynumber: 2.1 Consensus size: 118
4659475 TATTTAATTA
* * * **
4659485 ATTTTATAAATAACTTTTAATCCTGTTTTAATATTTAATTATTTTTTAATAT-TAAGAAATTA-C
1 ATTTTATAAATTA-TATTAAT-CTGTTTTAATATTTAATTATTTTTTAATATCAAAGAAAAGAGC
* *
4659548 -AGTCTTAAAACAACTGGATGTCCATTTTCTGATATTTTTAAATAAATAAATATCCT
64 TA-TCTTAAAACAACTAGAAGT-CATTTTCTGATATTTTTAAATAAATAAATATCCT
*
4659604 ATTTTATAAATTATATTAAT-TGTTTTAATTATTTATTTATTTTTTAATATCAAAGAAAAGAGCT
1 ATTTTATAAATTATATTAATCTGTTTTAA-TATTTAATTATTTTTTAATATCAAAGAAAAGAGCT
** * * **
4659668 ATCTTAAGGCACCTAGAAGTCATTTTCTGATATTTTTGAATAAATAAATATTTT
65 ATCTTAAAACAACTAGAAGTCATTTTCTGATATTTTTAAATAAATAAATATCCT
4659722 A-TTTATAAATATATAT
1 ATTTTATAAAT-TATAT
4659738 ATAAATTAAT
Statistics
Matches: 115, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
116 8 0.07
117 29 0.25
118 50 0.43
119 27 0.23
120 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.47
Consensus pattern (118 bp):
ATTTTATAAATTATATTAATCTGTTTTAATATTTAATTATTTTTTAATATCAAAGAAAAGAGCTA
TCTTAAAACAACTAGAAGTCATTTTCTGATATTTTTAAATAAATAAATATCCT
Found at i:4659742 original size:31 final size:31
Alignment explanation
Indices: 4659707--4659765 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4659697 ATATTTTTGA
4659707 ATAAATAAATATTTTAT-TTATAAATATATAT
1 ATAAATAAATATTTT-TGTTATAAATATATAT
* *
4659738 ATAAATTAATATTTTTGTTATAATTATA
1 ATAAATAAATATTTTTGTTATAAATATA
4659766 ATTTTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (31 bp):
ATAAATAAATATTTTTGTTATAAATATATAT
Found at i:4665598 original size:4 final size:4
Alignment explanation
Indices: 4665589--4665665 Score: 84
Period size: 4 Copynumber: 21.8 Consensus size: 4
4665579 CTCATCCAGC
4665589 AAAG AAAG -AAG AAA- AAA- AAAG AAA- AAAG AAAG AAAG AAA- AAA-
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
4665631 AAAG AAAG AAA- AAAG AAAG -AA- AAAG AAA- AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
4665666 AAAAAAATGA
Statistics
Matches: 65, Mismatches: 0, Indels: 16
0.80 0.00 0.20
Matches are distributed among these distances:
3 28 0.43
4 37 0.57
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:4665631 original size:25 final size:24
Alignment explanation
Indices: 4665593--4665680 Score: 110
Period size: 25 Copynumber: 3.6 Consensus size: 24
4665583 TCCAGCAAAG
4665593 AAAG-AAGAAAAAAAAAGAAAAAA
1 AAAGAAAGAAAAAAAAAGAAAAAA
4665616 GAAAGAAAGAAAAAAAAAGAAAGAAA
1 -AAAGAAAGAAAAAAAAAGAAA-AAA
4665642 AAAGAAAGAAAAAGAAAA-AAGAAAA
1 AAAGAAAGAAAAA-AAAAGAA-AAAA
4665667 AAA-AAATGAAAAAA
1 AAAGAAA-GAAAAAA
4665681 GGAAAATTGA
Statistics
Matches: 59, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
24 8 0.14
25 43 0.73
26 8 0.14
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (24 bp):
AAAGAAAGAAAAAAAAAGAAAAAA
Found at i:4665680 original size:1 final size:1
Alignment explanation
Indices: 4665600--4665672 Score: 56
Period size: 1 Copynumber: 73.0 Consensus size: 1
4665590 AAGAAAGAAG
* * * * * * * * * *
4665600 AAAAAAAAAGAAAAAAGAAAGAAAGAAAAAAAAAGAAAGAAAAAAGAAAGAAAAAGAAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4665665 AAAAAAAA
1 AAAAAAAA
4665673 TGAAAAAAGG
Statistics
Matches: 52, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (1 bp):
A
Found at i:4670393 original size:22 final size:22
Alignment explanation
Indices: 4670368--4670443 Score: 134
Period size: 22 Copynumber: 3.5 Consensus size: 22
4670358 TCTTCACTCA
*
4670368 TCAAAAATGATAGATTCTCTTT
1 TCAAAGATGATAGATTCTCTTT
4670390 TCAAAGATGATAGATTCTCTTT
1 TCAAAGATGATAGATTCTCTTT
*
4670412 TTAAAGATGATAGATTCTCTTT
1 TCAAAGATGATAGATTCTCTTT
4670434 TCAAAGATGA
1 TCAAAGATGA
4670444 AAGCTTTATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (22 bp):
TCAAAGATGATAGATTCTCTTT
Found at i:4671247 original size:76 final size:76
Alignment explanation
Indices: 4671121--4671927 Score: 1382
Period size: 76 Copynumber: 10.6 Consensus size: 76
4671111 CTATTTCCCA
* *
4671121 CATCTGTAAGTCCTACAGTGTATGATGTTACCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4671186 AGCCTTAGGGT
66 AGCCTTAGGGT
* * * *
4671197 CATCTATAAGTCCTACAGTTCATGATGTTACCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4671262 AGCCTTAGGGT
66 AGCCTTAGGGT
* * * *
4671273 CATCTGTAAGTCCTTCAGTACATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4671338 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
4671349 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGTTTTTTGATGTTTTAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4671414 AGCCTTAGGGT
66 AGCCTTAGGGT
*
4671425 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4671490 AGCCTTAGGGT
66 AGCCTTAGGGT
4671501 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4671566 AGCCTTAGGGT
66 AGCCTTAGGGT
*
4671577 CATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4671642 AGCCTTAGGGT
66 AGCCTTAGGGT
*
4671653 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAATAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
4671718 AGCCTTAGAGT
66 AGCCTTAGGGT
** *
4671729 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTAGGAACTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
4671794 AGCCTTAGGGT
66 AGCCTTAGGGT
*
4671805 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAAAACCTTCGGGAGCTTTTTGATGTTTTC
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC--AAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
4671870 AAAGCCTTAGGGT
64 AAAGCCTTAGGGT
* *
4671883 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA-CCTTCGGG
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
4671928 TCATCTGTAA
Statistics
Matches: 693, Mismatches: 36, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
75 8 0.01
76 615 0.89
78 70 0.10
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:4671913 original size:45 final size:46
Alignment explanation
Indices: 4671860--4671959 Score: 166
Period size: 46 Copynumber: 2.2 Consensus size: 46
4671850 GGGAGCTTTT
* *
4671860 TGATGTTTTC-AAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
*
4671905 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
4671951 TGATGTTTT
1 TGATGTTTT
4671960 TAAGACCTCT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 10 0.20
46 41 0.80
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (46 bp):
TGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:4672183 original size:3 final size:3
Alignment explanation
Indices: 4672111--4672172 Score: 76
Period size: 3 Copynumber: 21.3 Consensus size: 3
4672101 ATTTTACTTA
* *
4672111 ATT ATT ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT A-T ATT A-T ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
4672158 ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
4672173 AATAATTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 6 0.12
3 42 0.82
4 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:4673629 original size:12 final size:12
Alignment explanation
Indices: 4673599--4673640 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
4673589 ATTATTTTTA
4673599 TATTTTAATTAT
1 TATTTTAATTAT
**
4673611 TGCTTTAATTAT
1 TATTTTAATTAT
4673623 TATTTT-ATTAT
1 TATTTTAATTAT
4673634 TATTTTA
1 TATTTTA
4673641 TTTTAATCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:4673641 original size:11 final size:11
Alignment explanation
Indices: 4673587--4673642 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
4673577 AAATGTTATT
4673587 TTATTA-TTT-
1 TTATTATTTTA
4673596 TTA-TATTTTAA
1 TTATTATTTT-A
* *
4673607 TTATTGCTTTAA
1 TTATT-ATTTTA
4673619 TTATTATTTTA
1 TTATTATTTTA
4673630 TTATTATTTTA
1 TTATTATTTTA
4673641 TT
1 TT
4673643 TTAATCATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 2 0.05
9 6 0.16
11 20 0.53
12 7 0.18
13 3 0.08
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:4675090 original size:108 final size:109
Alignment explanation
Indices: 4674909--4675308 Score: 315
Period size: 108 Copynumber: 3.6 Consensus size: 109
4674899 AGCTAATAGG
* *** ** *
4674909 GCCTTAGAAATCCGACGATAA-AAAATAGGTTAATTACTTGATTTGTTATC-ATTATTATCAACA
1 GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTGGATACATTATCAACCATAATCAACA
*
4674972 TATTAGGTAGCGCCTAAAATGTTACCAAATTTTAAGTTGATGGA
66 TAATAGGTAGCGCCTAAAATGTTACCAAATTTTAAGTTGATGGA
* *
4675016 ACCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTGGAAACATTATCAACCATAAT-AACA
1 GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTGGATACATTATCAACCATAATCAACA
* * * * * ** * *
4675080 TAATAAGTAGCTCTTATTTAATGTAATAGGTAGCACCTGTTTAAAGCTGATGGG
66 TAATAGGTAGCGC----CTAA---AAT-GTTACCAAAT-TTT-AAGTTGATGGA
* * ** * * *** * * *
4675134 GCTTTAGAAATCCAACTTTAACAAAATAGTTTAATTACTTGATTTGTTATCAA-TATTATCAATA
1 GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTGGATACATTATCAACCATAATCAACA
* * * * * *
4675198 TATTTGGTAGCGCCAAAAATGTTACCAAAGTTAAAGTAGATGGA
66 TAATAGGTAGCGCCTAAAATGTTACCAAATTTTAAGTTGATGGA
* * *
4675242 GCCTTAGAAATCAGACGATAACAAAATATGTTAATTACTGGACACATTATCAACCATAAT-AACA
1 GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTGGATACATTATCAACCATAATCAACA
4675306 TAA
66 TAA
4675309 CAAATAACTT
Statistics
Matches: 215, Mismatches: 64, Indels: 27
0.70 0.21 0.09
Matches are distributed among these distances:
107 20 0.09
108 92 0.43
109 11 0.05
110 5 0.02
111 3 0.01
112 3 0.01
114 2 0.01
115 3 0.01
116 6 0.03
117 7 0.03
118 63 0.29
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (109 bp):
GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTGGATACATTATCAACCATAATCAACA
TAATAGGTAGCGCCTAAAATGTTACCAAATTTTAAGTTGATGGA
Found at i:4675219 original size:226 final size:224
Alignment explanation
Indices: 4674823--4675426 Score: 892
Period size: 226 Copynumber: 2.7 Consensus size: 224
4674813 ACATAACCAA
* * * *
4674823 TTAATTACTAGAAACATTATCAACCATAATAACA-AAAGGTAGTGCTTATGTAACGTAATAGGTA
1 TTAATTACTGGAAACATTATCAACCATAATAACATAAAAGTAGT-CTTATTTAATGTAATAGGTA
* * * *
4674887 GCGCCTTTTTAAAGCTAATAGGGCCTTAGAAATCCGACGATAA-AAAATAGGTTAATTACTTGAT
65 GCGCCTGTTTAAAGCTGATGGGGCCTTAGAAATCCGACTATAACAAAATAGGTTAATTACTTGAT
* * * * *
4674951 TTGTTATCATTATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAATTTTAAGTTGATGGA
130 TTGTTATCAATATTATCAACATATTAGGTAGCGCCAAAAATGTTACCAAAGTTAAAGTAGATGGA
*
4675016 ACCTTAGAAATCCGACGATAACAAAATAGG
195 ACCTTAGAAATCAGACGATAACAAAATAGG
4675046 TTAATTACTGGAAACATTATCAACCATAATAACATAATAAGTAGCTCTTATTTAATGTAATAGGT
1 TTAATTACTGGAAACATTATCAACCATAATAACATAA-AAGTAG-TCTTATTTAATGTAATAGGT
* * * * *
4675111 AGCACCTGTTTAAAGCTGATGGGGCTTTAGAAATCCAACTTTAACAAAATAGTTTAATTACTTGA
64 AGCGCCTGTTTAAAGCTGATGGGGCCTTAGAAATCCGACTATAACAAAATAGGTTAATTACTTGA
* *
4675176 TTTGTTATCAATATTATCAATATATTTGGTAGCGCCAAAAATGTTACCAAAGTTAAAGTAGATGG
129 TTTGTTATCAATATTATCAACATATTAGGTAGCGCCAAAAATGTTACCAAAGTTAAAGTAGATGG
* *
4675241 AGCCTTAGAAATCAGACGATAACAAAATATG
194 AACCTTAGAAATCAGACGATAACAAAATAGG
* * *
4675272 TTAATTACTGGACACATTATCAACCATAATAACATAACAAATA-ACTTATTTAATGTAATAGGTA
1 TTAATTACTGGAAACATTATCAACCATAATAACATAA-AAGTAGTCTTATTTAATGTAATAGGTA
*
4675336 GCGCCTGTTTAAAGCTGATGGGGCCTTAGAAATTCGA-TGATAACAAAATAGGTTAATTACTTGA
65 GCGCCTGTTTAAAGCTGATGGGGCCTTAGAAATCCGACT-ATAACAAAATAGGTTAATTACTTGA
4675400 TTTGTTATCAATATTATCAACATATTA
129 TTTGTTATCAATATTATCAACATATTA
4675427 CCGTGTACAT
Statistics
Matches: 341, Mismatches: 35, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
223 34 0.10
224 103 0.30
225 58 0.17
226 146 0.43
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (224 bp):
TTAATTACTGGAAACATTATCAACCATAATAACATAAAAGTAGTCTTATTTAATGTAATAGGTAG
CGCCTGTTTAAAGCTGATGGGGCCTTAGAAATCCGACTATAACAAAATAGGTTAATTACTTGATT
TGTTATCAATATTATCAACATATTAGGTAGCGCCAAAAATGTTACCAAAGTTAAAGTAGATGGAA
CCTTAGAAATCAGACGATAACAAAATAGG
Found at i:4676127 original size:198 final size:198
Alignment explanation
Indices: 4675600--4676324 Score: 869
Period size: 198 Copynumber: 3.7 Consensus size: 198
4675590 TTACCATTTT
* * * * * **
4675600 CATTGTAAATTAACCTATTACCTTACAA-TAATAAGG-TTAAAAATTATAAGTACTAATACTT-T
1 CATTGTAAATTTACCTATAACTTTA-AAGTAAT-CGGTTTCAAAATTATAAGTACCGATACTTGT
** * * * *
4675662 ATATATGTGTATCGATACATTT-TGCGTGCAAATTGTTTAAGAAACGTACTGGACTAACAGTATT
64 -TATACATGTATCGATAC-TTTGTGCGTGCAAATT-TTTAAGAAGCATACTGGACTAAAAGTATC
* * *
4675726 GATTCAC-ATACAAAACGTATCGATACTCTATGTTTACACCTATTATCATTAAACTGGTAGACTT
126 GATAC-CTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAGACTT
*
4675790 TTACCGTCGA
190 TTA-CGTTGA
* * *
4675800 CATTGTGAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCGATACTTGTTA
1 CATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTATAAGTACCGATACTTGTTA
* * *
4675865 TACATGTATCGATACTTTGT--GTGCAAACTGTTAAGAAGCATACTGGACAAAAAGTATCGATAC
66 TACATGTATCGATACTTTGTGCGTGCAAATTTTTAAGAAGCATACTGGACTAAAAGTATCGATAC
** * * ** * *
4675928 CTATACAAAAAGTATAAATACTTTATGTTTACGCCTATTATCAAAAAACCGATAGACTTTCATCG
131 CTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTA-CG
4675993 TTGA
195 TTGA
* * * ** *
4675997 CATT-TTAATTTTCCTATAATTTTATTGTAATAGGTTTCAAAATTATAAGTACCGATAC-T-TTA
1 CATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTATAAGTACCGATACTTGTTA
* * *
4676059 TACATGTGTATCGATACATTT-TACGTGCAAATTCTTGAGAAGCATACTGGACTAAAAGTATCGA
66 TACA--TGTATCGATAC-TTTGTGCGTGCAAATTTTTAAGAAGCATACTGGACTAAAAGTATCGA
4676123 TACCTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTA
128 TACCTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTA
4676188 CTGTTGA
193 C-GTTGA
*
4676195 CATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTATAAGTATCGATACTTGTTA
1 CATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTATAAGTACCGATACTTGTTA
* * *
4676260 TACATGTATCGATACTTTGTGCGTGCAAATTTTTAAGAAGTATACTGGATTAAAAGTATCTATAC
66 TACATGTATCGATACTTTGTGCGTGCAAATTTTTAAGAAGCATACTGGACTAAAAGTATCGATAC
4676325 TTTATGTTTA
Statistics
Matches: 445, Mismatches: 65, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
194 7 0.02
195 1 0.00
196 59 0.13
197 90 0.20
198 113 0.25
199 105 0.24
200 62 0.14
201 8 0.02
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.36
Consensus pattern (198 bp):
CATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTATAAGTACCGATACTTGTTA
TACATGTATCGATACTTTGTGCGTGCAAATTTTTAAGAAGCATACTGGACTAAAAGTATCGATAC
CTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTACGT
TGA
Found at i:4676316 original size:199 final size:198
Alignment explanation
Indices: 4675600--4677205 Score: 919
Period size: 199 Copynumber: 8.3 Consensus size: 198
4675590 TTACCATTTT
* * * * *
4675600 CATTGTAAATTAACCTATTACCTTACAA-TAATAAGG-TTAAAAATTATAAGTA-CTAATACTTT
1 CATTGTAAATTTACCTATAACTTTA-AAGTAAT-AGGTTTCAAAATTATAAGTATC-GATACTTT
** * * * *
4675662 ATATATGTGTATCGATACATTTTGCGTGCAAATTGTTTAAGAAACGTACTGGACTAACAGTATTG
63 -TATACATGTATCGATACATTTTGCGTGCAAATT-TTTAAGAAGCATACTGGACTAAAAGTATCG
* * *
4675727 ATTCAC-ATACAAAACGTATCGATACTCTATGTTTACACCTATTATCATTAAACTGGTAGACTTT
126 ATAC-CTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAGACTTT
* *
4675791 TACCGTCGA
190 TACTGTTGA
* * *
4675800 CATTGTGAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCGATACTTGTTA
1 CATTGTAAATTTACCTATAACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACTT-TTA
* * * *
4675865 TACATGTATCGATAC--TTTGTGTGCAAACTGTTAAGAAGCATACTGGACAAAAAGTATCGATAC
65 TACATGTATCGATACATTTTGCGTGCAAATTTTTAAGAAGCATACTGGACTAAAAGTATCGATAC
** * * ** * *
4675928 CTATACAAAAAGTATAAATACTTTATGTTTACGCCTATTATCAAAAAACCGATAGACTTTCA-TC
130 CTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTACT-
4675992 GTTGA
194 GTTGA
* * * ** *
4675997 CATT-TTAATTTTCCTATAATTTTATTGTAATAGGTTTCAAAATTATAAGTACCGATAC-TTTAT
1 CATTGTAAATTTACCTATAACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACTTTTAT
* * *
4676060 ACATGTGTATCGATACATTTTACGTGCAAATTCTTGAGAAGCATACTGGACTAAAAGTATCGATA
66 ACA--TGTATCGATACATTTTGCGTGCAAATTTTTAAGAAGCATACTGGACTAAAAGTATCGATA
4676125 CCTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTACT
129 CCTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTACT
4676190 GTTGA
194 GTTGA
*
4676195 CATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTATAAGTATCGATACTTGTTA
1 CATTGTAAATTTACCTATAACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACTT-TTA
* * *
4676260 TACATGTATCGATAC-TTTGTGCGTGCAAATTTTTAAGAAGTATACTGGATTAAAAGTATCTATA
65 TACATGTATCGATACATTT-TGCGTGCAAATTTTTAAGAAGCATACTGGACTAAAAGTATCGATA
* **** * ** * * * **
4676324 -CT-T--TATGTTTAT-GCCTA-T-TATCATTAAACCGATAGATTGGTACCATT-TACATTGTA-
129 CCTATACAAAAAGTATCG-ATACTCTATGTTTACACC--T--A-T--TATCATTAAAC-CGGTAG
* *
4676380 A-ATTTACCTATT-A
185 ACTTTTA-CTGTTGA
* ** * * * * * * * * * * ***
4676393 C-TT-TAAA-GTA---ATAGGTTTCGAAATTAACA-ATATCGATACTTGTGA-T-TTG-TGCAAC
1 CATTGTAAATTTACCTATAACTTT--AAAGTAATAGGTTTC-AAAATTATAAGTATCGATACTTT
* * * *
4676448 GATAC---------T---TTTTGCGTGAAAATTGTTTGAGAAGCATACTAGACTAAAAGTATCGA
63 TATACATGTATCGATACATTTTGCGTGCAAATT-TTTAAGAAGCATACTGGACTAAAAGTATCGA
* * * *
4676501 TACCTATATAAAAAGTATTGATACTCTATGTTTACGCCTATTATCATTAAACCGATAGACTTTTA
127 TACCTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTA
*
4676566 CCGTTGA
192 CTGTTGA
* * * *
4676573 CATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCAATGCTTGTTA
1 CATTGTAAATTTACCTATAACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACTT-TTA
* * *
4676638 TACATGTATCGATAC-TTTGTGTGTGCAAATTGTTGAGAAGCATACTGGACTAAAAGTATCGATA
65 TACATGTATCGATACATTT-TGCGTGCAAATTTTTAAGAAGCATACTGGACTAAAAGTATCGATA
*** * ** * * * * *
4676702 CTCTATGTTTACACCTAT---TA-TC-A---TTAAACCAATAGAT-ATT-TACC-GTTGACATTT
129 C-CTAT-ACAAAAAGTATCGATACTCTATGTTTACACCTAT-TATCATTAAACCGGTAGAC-TTT
*
4676756 TAAT-TT-A
190 TACTGTTGA
* * * ** * *
4676763 C-CTAT-AACTT---TA-AA---GGAA-T--TA-GTTTCGAAATT-TCATGTATCGATAC-TTTA
1 CATTGTAAATTTACCTATAACTTTAAAGTAATAGGTTTCAAAATTAT-AAGTATCGATACTTTTA
* * * *
4676813 TACATGTGTATCGATAC-TTTGTGCGTGCAAATTGTTGAGAAACATATTGGACTAAAAGTATCGA
65 TACA--TGTATCGATACATTT-TGCGTGCAAATTTTTAAGAAGCATACTGGACTAAAAGTATCGA
* * * * * * * *
4676877 TCCCTATATAAAAAGTATCGATATTTTATGTTTGCGCCTATTATCATTAAACGGGTAAACTTTTA
127 TACCTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTA
4676942 CTGTTGA
192 CTGTTGA
* * * * * *
4676949 CATTTTTAATGTATCTATAACTTTAAAGTAATCA-GTTTC--GA--AT--GTATCAATACTTTTT
1 CATTGTAAATTTACCTATAACTTTAAAGTAAT-AGGTTTCAAAATTATAAGTATCGATAC-TTTT
* * * * * * *
4677007 GTACATGTATCGATACTTGTTTACGTCCAAATTGTTTGAGATGCATACTGGAATAAAAGTATCGA
64 ATACATGTATCGATACAT-TTTGCGTGCAAATT-TTTAAGAAGCATACTGGACTAAAAGTATCGA
* * * * * * *
4677072 TACTTATATAATAAGTATCGATACGT-TATGTTTACGA-CTATTATCATTAAATCGATATATTTT
127 TACCTATACAAAAAGTATCGATAC-TCTATGTTTAC-ACCTATTATCATTAAACCGGTAGACTTT
*
4677135 TACTGTTTA
190 TACTGTTGA
* * ** * *
4677144 CATTGTAAATTTACGTATTACTTTAAAGTAATACATTTCAAAATTCTAAGTATCGAAACTTT
1 CATTGTAAATTTACCTATAACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACTTT
4677206 GTTGTCGAAA
Statistics
Matches: 1067, Mismatches: 228, Indels: 222
0.70 0.15 0.15
Matches are distributed among these distances:
175 13 0.01
176 6 0.01
177 77 0.07
178 22 0.02
179 38 0.04
180 11 0.01
181 7 0.01
182 6 0.01
183 18 0.02
184 23 0.02
185 20 0.02
186 9 0.01
187 5 0.00
188 11 0.01
189 2 0.00
190 6 0.01
191 10 0.01
192 18 0.02
193 43 0.04
194 35 0.03
195 134 0.13
196 66 0.06
197 94 0.09
198 132 0.12
199 151 0.14
200 87 0.08
201 23 0.02
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (198 bp):
CATTGTAAATTTACCTATAACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACTTTTAT
ACATGTATCGATACATTTTGCGTGCAAATTTTTAAGAAGCATACTGGACTAAAAGTATCGATACC
TATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTACTGT
TGA
Found at i:4676378 original size:178 final size:178
Alignment explanation
Indices: 4676133--4676877 Score: 675
Period size: 178 Copynumber: 4.1 Consensus size: 178
4676123 TACCTATACA
* *
4676133 AAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTACTGTTGACAT
1 AAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGATAGACTTTTACCGTTGACAT
*
4676198 TGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTATAAGTATCGATACTTGTTATAC
66 TGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCGATACTTGTTATAC
* * * *
4676263 ATGTATCGATACTTTGTGCGTGCAAATTTTTAAGAAGTATACTGGATT
131 ATGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACT
* * ** * * *
4676311 AAAAGTATCTATACTTTATGTTTATGCCTATTATCATTAAACCGATAGA-TTGGTACCATTTACA
1 AAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGATAGACTT-TTACCGTTGACA
* * * *
4676375 TTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTA-ACAATATCGATACTTGTGAT
65 TTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATA-AGTATCGATACTTGTTAT
*** * * * * *
4676439 TTGTGCAACGATACTTTTTGCGTGAAAATTGTTTGAGAAGCATACTAGACT
129 ACATGTATCGATACTTTGTGCGTGCAAATTG-TTGAGAAGCATACTGGACT
* * * ** * * **
4676490 AAAAGTATCGATACCTATATAAAAAGTATTGATACTCTA-TGT--TTACGCCTATTA-TCATTAA
1 AAAAGTATCGATA-CTCTAT-----GT-TT-ACAC-CTATTATCATTAAACCGA-TAGAC-TTTT
* * * *
4676551 ACCGATAGACTTTTACCGTTGACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAA
55 ACCG-TTGAC-ATT---G-T-AAATT-T-AC-----CTATAACTTTAAAGTAATCGGTTTCGAAA
* * *
4676616 TTATAAGTATCAATGCTTGTTATACATGTATCGATACTTTGTGTGTGCAAATTGTTGAGAAGCAT
106 TTATAAGTATCGATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCAT
4676681 ACTGGACT
171 ACTGGACT
*
4676689 AAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCAATAGA-TATTTACCGTTGACA
1 AAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGATAGACT-TTTACCGTTGACA
* * ** *
4676753 TT-TTAATTTACCTATAACTTTAAAGGAATTAGTTTCGAAATT-TCATGTATCGATAC-T-TTAT
65 TTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTAT-AAGTATCGATACTTGTTAT
* *
4676814 ACATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAACATATTGGACT
129 ACA--TGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACT
4676866 AAAAGTATCGAT
1 AAAAGTATCGAT
4676878 CCCTATATAA
Statistics
Matches: 449, Mismatches: 80, Indels: 77
0.74 0.13 0.13
Matches are distributed among these distances:
175 7 0.02
176 2 0.00
177 96 0.21
178 132 0.29
179 27 0.06
180 5 0.01
182 1 0.00
183 1 0.00
184 3 0.01
185 9 0.02
186 7 0.02
187 10 0.02
188 5 0.01
190 5 0.01
191 11 0.02
192 10 0.02
193 12 0.03
194 1 0.00
195 1 0.00
198 5 0.01
199 31 0.07
200 67 0.15
201 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (178 bp):
AAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGATAGACTTTTACCGTTGACAT
TGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCGATACTTGTTATAC
ATGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACT
Found at i:4676637 original size:378 final size:374
Alignment explanation
Indices: 4675655--4677076 Score: 1652
Period size: 378 Copynumber: 3.7 Consensus size: 374
4675645 ATAAGTACTA
* * *
4675655 ATACTTTATATATGTGTATCGATACATTTTGCGTGCAAATTGTTTAAGAAACGTACTGGACTAAC
1 ATACTTTATA-ATGTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGACTAAA
* * * *
4675720 AGTATTGATTCAC-ATACAAAACGTATCGATACTCTATGTTTACACCTATTATCATTAAACTGGT
65 AGTATCGATAC-CTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGT
* *
4675784 AGACTTTTACCGTCGACATTGTGAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAA
129 AGACTTTTACCGTTGACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAA
* *
4675849 GTATCGATACTTGTTATACATGTATCGATACTTTGT--GTGCAAACTGTTAAGAAGCATACTGGA
194 GTATCAATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTGTTAAGAAGCATACT---
** **
4675912 CAAAAAGTATCGATACCTATACAAAAAGTATAAATACTTTATGTTTACGCCTATTATCAAAAAAC
256 ------G----G--A--T-T---AAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAAC
* * * ** *
4675977 CGATAGACTTTCATCGTTGACATTTTAATTTTCCTATAATTTTATTGTAATAGGTTTCAAAATTA
303 CGATAGA-TTT-ACCGTTGACATTTTAATTTACCTATAACTTTAAAGTAATAGGTTTCGAAATTA
*
4676042 TA-AGTACCG
366 -ACAGTATCG
* * *
4676051 ATACTTTATACATGTGTATCGATACATTTTACGTGCAAATT-CTTGAGAAGCATACTGGACTAAA
1 ATACTTTATA-ATGTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGACTAAA
4676115 AGTATCGATACCTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTA
65 AGTATCGATACCTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTA
* *
4676180 GACTTTTACTGTTGACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTATAAG
130 GACTTTTACCGTTGACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAAG
* * *
4676245 TATCGATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTTTTAAGAAGTATACTGGAT
195 TATCAATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTGTTAAGAAGCATACTGGAT
* * * *
4676310 TAAAAGTATCTATACTTTATGTTTATGCCTATTATCATTAAACCGATAGATTGGTACCATTTACA
260 TAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGATAGATT--TACCGTTGACA
* * *
4676375 TTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTAACAATATCG
323 TT-TTAATTTACCTATAACTTTAAAGTAATAGGTTTCGAAATTAACAGTATCG
* * * * * * *
4676428 ATACTTGTGAT-TTGTGCAACGATACTTTTTGCGTGAAAATTGTTTGAGAAGCATACTAGACTAA
1 ATACTT-T-ATAATGTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGACTAA
* * * *
4676492 AAGTATCGATACCTATATAAAAAGTATTGATACTCTATGTTTACGCCTATTATCATTAAACCGAT
64 AAGTATCGATACCTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGT
4676557 AGACTTTTACCGTTGACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAA
129 AGACTTTTACCGTTGACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAA
* * *
4676622 GTATCAATGCTTGTTATACATGTATCGATACTTTGTGTGTGCAAATTGTTGAGAAGCATACTGGA
194 GTATCAATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTGTTAAGAAGCATACTGGA
* * * *
4676687 CTAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCAATAGATATTTACCGTTGAC
259 TTAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGATAG--ATTTACCGTTGAC
* *
4676752 ATTTTAATTTACCTATAACTTTAAAGGAATTA-GTTTCGAAATT-TCATGTATCG
322 ATTTTAATTTACCTATAACTTTAAAGTAA-TAGGTTTCGAAATTAACA-GTATCG
*
4676805 ATACTTTATACATGTGTATCGATAC-TTTGTGCGTGCAAATTG-TTGAGAAACATATTGGACTAA
1 ATACTTTATA-ATGTGTATCGATACATTT-TGCGTGCAAATTGTTTGAGAAACATACTGGACTAA
* * * * * * *
4676868 AAGTATCGATCCCTATATAAAAAGTATCGATATTTTATGTTTGCGCCTATTATCATTAAACGGGT
64 AAGTATCGATACCTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGT
* * * * * * *
4676933 AAACTTTTACTGTTGACATTTTTAATGTATCTATAACTTTAAAGTAATCAGTTTCG--A--AT--
129 AGACTTTTACCGTTGACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAA
* * * * * * *
4676992 GTATCAATACTTTTTGTACATGTATCGATACTTGTTTACGTCCAAATTGTTTGAGATGCATACTG
194 GTATCAATACTTGTTATACATGTATCGATACTT-TGTGCGTGCAAATTG-TTAAGAAGCATACTG
*
4677057 GAATAAAAGTATCGATACTT
257 GATTAAAAGTATCGATACTT
4677077 ATATAATAAG
Statistics
Matches: 908, Mismatches: 99, Indels: 62
0.85 0.09 0.06
Matches are distributed among these distances:
370 30 0.03
371 11 0.01
372 34 0.04
374 1 0.00
375 4 0.00
376 185 0.20
377 138 0.15
378 261 0.29
379 3 0.00
380 4 0.00
382 1 0.00
384 1 0.00
388 1 0.00
394 1 0.00
395 173 0.19
396 39 0.04
397 21 0.02
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (374 bp):
ATACTTTATAATGTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGACTAAAA
GTATCGATACCTATACAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCGGTAG
ACTTTTACCGTTGACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAAGT
ATCAATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTGTTAAGAAGCATACTGGATT
AAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGATAGATTTACCGTTGACATTT
TAATTTACCTATAACTTTAAAGTAATAGGTTTCGAAATTAACAGTATCG
Found at i:4676654 original size:200 final size:200
Alignment explanation
Indices: 4676311--4676707 Score: 550
Period size: 200 Copynumber: 2.0 Consensus size: 200
4676301 ATACTGGATT
* * *
4676311 AAAAGTATCTATACTTTATGTTTATGCCTATTATCATTAAACCGATAGATTGGTACCATTTACAT
1 AAAAGTATCTATACTCTATGTTTACGCCTATTATCATTAAACCGATAGATTGGTACCATTGACAT
* * **
4676376 TGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTAACAATATCGATACTTGTGATTT
66 TGTAAATTTACCTATAACTTTAAAGTAATAGGTTTCGAAATTAACAATATCAATACTTGTGATAC
* *
4676441 GTGCAACGATACTTTTTGCGTGAAAATTGTTTGAGAAGCATACTAGACTAAAAGTATCGATAC-C
131 ATGCAACGATACTTTGTGCGTGAAAATTG-TTGAGAAGCATACTAGACTAAAAGTATCGATACTC
4676505 TATATA
195 TATATA
* *
4676511 AAAAGTAT-TGATACTCTATGTTTACGCCTATTATCATTAAACCGATAGACTT-TTACCGTTGAC
1 AAAAGTATCT-ATACTCTATGTTTACGCCTATTATCATTAAACCGATAGA-TTGGTACCATTGAC
* * * *
4676574 ATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATA-AGTATCAATGCTTGTTA
64 ATTGTAAATTTACCTATAACTTTAAAGTAATAGGTTTCGAAATTA-ACAATATCAATACTTGTGA
* * * * *
4676638 TACATGTATCGATACTTTGTGTGTGCAAATTGTTGAGAAGCATACTGGACTAAAAGTATCGATAC
128 TACATGCAACGATACTTTGTGCGTGAAAATTGTTGAGAAGCATACTAGACTAAAAGTATCGATAC
4676703 TCTAT
193 TCTAT
4676708 GTTTACACCT
Statistics
Matches: 173, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
199 33 0.19
200 137 0.79
201 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (200 bp):
AAAAGTATCTATACTCTATGTTTACGCCTATTATCATTAAACCGATAGATTGGTACCATTGACAT
TGTAAATTTACCTATAACTTTAAAGTAATAGGTTTCGAAATTAACAATATCAATACTTGTGATAC
ATGCAACGATACTTTGTGCGTGAAAATTGTTGAGAAGCATACTAGACTAAAAGTATCGATACTCT
ATATA
Found at i:4676843 original size:177 final size:178
Alignment explanation
Indices: 4676511--4676877 Score: 546
Period size: 177 Copynumber: 2.1 Consensus size: 178
4676501 TACCTATATA
* * *
4676511 AAAAGTATTGATACTCTATGTTTACGCCTATTATCATTAAACCGATAGACTTTTACCGTTGACAT
1 AAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCAATAGACTTTTACCGTTGACAT
* * *
4676576 TGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCAATGCTTGTTATAC
66 TGTAAATTTACCTATAACTTTAAAGGAATCAGTTTCGAAATTATAAGTATCAATACTTGTTATAC
* *
4676641 ATGTATCGATACTTTGTGTGTGCAAATTGTTGAGAAGCATACTGGACT
131 ATGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAACATACTGGACT
4676689 AAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCAATAGA-TATTTACCGTTGACA
1 AAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCAATAGACT-TTTACCGTTGACA
* * * *
4676753 TT-TTAATTTACCTATAACTTTAAAGGAATTAGTTTCGAAATT-TCATGTATCGATAC-T-TTAT
65 TTGTAAATTTACCTATAACTTTAAAGGAATCAGTTTCGAAATTAT-AAGTATCAATACTTGTTAT
*
4676814 ACATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAACATATTGGACT
129 ACA--TGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAACATACTGGACT
4676866 AAAAGTATCGAT
1 AAAAGTATCGAT
4676878 CCCTATATAA
Statistics
Matches: 172, Mismatches: 13, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
175 7 0.04
176 2 0.01
177 102 0.59
178 61 0.35
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (178 bp):
AAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCAATAGACTTTTACCGTTGACAT
TGTAAATTTACCTATAACTTTAAAGGAATCAGTTTCGAAATTATAAGTATCAATACTTGTTATAC
ATGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAACATACTGGACT
Found at i:4677082 original size:20 final size:22
Alignment explanation
Indices: 4677059--4677100 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
4677049 GCATACTGGA
4677059 ATAA-AAGTATCGATAC-TTAT
1 ATAATAAGTATCGATACGTTAT
4677079 ATAATAAGTATCGATACGTTAT
1 ATAATAAGTATCGATACGTTAT
4677101 GTTTACGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (22 bp):
ATAATAAGTATCGATACGTTAT
Found at i:4677103 original size:195 final size:190
Alignment explanation
Indices: 4676689--4677175 Score: 505
Period size: 195 Copynumber: 2.5 Consensus size: 190
4676679 ATACTGGACT
* * * *
4676689 AAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCAATAGATATTTACCGTTGACA-
1 AAAAGTATCGATACT-TATGTTTACGCCTATTATCATTAAA-CGATAAAT-TTTACTGTTGACAT
* * *
4676753 TTTTAATTTACCTATAACTTTAAAGGAATTAGTTTCGAAATTTCATGTATCGATACTTTATACAT
63 TTTTAATTTA-CTATAACTTTAAAGTAATCAGTTTCG-AA--T-ATGTATCAATACTTTATACA-
* * * * *
4676818 GTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAACATATTGGACTAAAAGTATCGATCCCTA
122 GTGTATCGATACTTTGTACGTCCAAATTGTTGAGAAACATACTGGAATAAAAGTATCGATACCTA
4676883 TATA
187 TATA
* * *
4676887 AAAAGTATCGATATTTTATGTTTGCGCCTATTATCATTAAACGGGTAAACTTTTACTGTTGACAT
1 AAAAGTATCGATA-CTTATGTTTACGCCTATTATCATTAAAC-GATAAA-TTTTACTGTTGACAT
* *
4676952 TTTTAATGTATCTATAACTTTAAAGTAATCAGTTTCG-A-ATGTATCAATACTTTTTGTACA-TG
63 TTTTAATTTA-CTATAACTTTAAAGTAATCAGTTTCGAATATGTATCAATAC--TTTATACAGTG
* ** *
4677014 TATCGATACTTGTTTACGTCCAAATTGTTTGAGATGCATACTGGAATAAAAGTATCGATACTTAT
125 TATCGATACTT-TGTACGTCCAAATTG-TTGAGAAACATACTGGAATAAAAGTATCGATACCTAT
4677079 ATA
188 ATA
* * * *
4677082 ATAAGTATCGATACGTTATGTTTACGACTATTATCATTAAATCGATATATTTTTACTGTTTACAT
1 AAAAGTATCGATAC-TTATGTTTACGCCTATTATCATTAAA-CGATA-AATTTTACTGTTGACAT
* * *
4677147 TGTAAATTTACGTATTACTTTAAAGTAAT
63 TTTTAATTTAC-TATAACTTTAAAGTAAT
4677176 ACATTTCAAA
Statistics
Matches: 244, Mismatches: 33, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
193 24 0.10
194 13 0.05
195 117 0.48
196 2 0.01
197 2 0.01
198 51 0.21
199 35 0.14
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (190 bp):
AAAAGTATCGATACTTATGTTTACGCCTATTATCATTAAACGATAAATTTTACTGTTGACATTTT
TAATTTACTATAACTTTAAAGTAATCAGTTTCGAATATGTATCAATACTTTATACAGTGTATCGA
TACTTTGTACGTCCAAATTGTTGAGAAACATACTGGAATAAAAGTATCGATACCTATATA
Found at i:4682075 original size:200 final size:200
Alignment explanation
Indices: 4681714--4682956 Score: 1231
Period size: 200 Copynumber: 6.2 Consensus size: 200
4681704 TTTTAGATCG
* * * *
4681714 AAAGTATCGATACCTATACAAAAAGTATCAATAC-TTATGTTTATGCCTATTATCATTAAACCAA
1 AAAGTATCGATACCTATATAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCAG
*
4681778 TATATTTTTACCGTT-TACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTA-
66 TAGATTTTTACCGTTAT-CATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTAT
* * * * * * * **
4681841 ATAGTATCAATATTTGTGATATATGCAGCGATACTTTTTGCGTGAAAATTGTTTGAGAAACATAC
130 A-AGTATCGATACTTGTTATACATGTATCGATACTTTTTGCGTGCAAATTGTTTGAGATGCATAC
*
4681906 TAGACTA
194 TAGAATA
* *
4681913 AAAGTATCGATACCTATATAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCAG
1 AAAGTATCGATACCTATATAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCAG
* * *
4681978 TAGACTTTTACCGTTGAT-ATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTAT
66 TAGATTTTTACCGTT-ATCATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTAT
* *
4682042 AAGTATCGATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTG-TTGAGAAGCATACT
130 AAGTATCGATACTTGTTATACATGTATCGATACTTTTTGCGTGCAAATTGTTTGAGATGCATACT
* *
4682106 GGACTA
195 AGAATA
* ** * ** *
4682112 AAAGTATTGATACCTATGGAAAAAGTATCGATAATTTACATTTACGCCTATTATCATTAAACCAA
1 AAAGTATCGATACCTATATAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCAG
* * * * **
4682177 TAGATTTTTATCGTT-TACATTGTAAATTTACATATTATTTTAAAGTAATAGGTTTATG-GTTTA
66 TAGATTTTTACCGTTAT-CATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTT-CGAAATTA
* * * * * * *
4682240 TAAGTATTGATACTTGTGATACGTGTATCAATAC-TTTTGCGTGCAAATTGTTTGTGTTGAATAT
129 TAAGTATCGATACTTGTTATACATGTATCGATACTTTTTGCGTGCAAATTGTTTGAGATGCATA-
*
4682304 TTA-AATA
193 CTAGAATA
* * * * * *
4682311 CAAGTATCGATACTTATATAATAAGTATCGATACATTATGATTACGCCTGTTATCATTAAACC-G
1 AAAGTATCGATACCTATATAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCAG
* * **
4682375 ATAGATTTTTACCGTTTTCATTGTAAAATTACCTATTACTTTAAAGTAATAAAATTTTCATTGTA
66 -TAGATTTTTACCGTTATCATTGTAAATTTACCTATTACTTTAAAGTAAT--AGGTTTC---G--
* * * *
4682440 AAATTACCTATTACGGTAATAGATACTTGTTATACGTGCATCGATACTATTTTGCGTGCAATTTG
123 AAATTA--TA--A--GT-ATCGATACTTGTTATACATGTATCGATACT-TTTTGCGTGCAAATT-
* * *
4682505 GTTT-AGATGTACACTGGAATA
179 GTTTGAGATGCATACTAGAATA
* * * *
4682526 GAAGTAGCGATACTTATATAATAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCAG
1 AAAGTATCGATACCTATATAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCAG
* * * *
4682591 TAGATTTTTACCGTTTTCATTGTAAATTTACCTATTTCTTTAAAGAAATAGGTTTCAAAATTATA
66 TAGATTTTTACCGTTATCATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATA
* *
4682656 AGTA-CTGATACTTGTTATACGTGTATCAATACTTTTTGCGTGCAAATTGTTTGAGATGCATACT
131 AGTATC-GATACTTGTTATACATGTATCGATACTTTTTGCGTGCAAATTGTTTGAGATGCATACT
*
4682720 AGACTA
195 AGAATA
* * * ** * * * *
4682726 AAAGTATCAATACATATTTAGTACGTATTGATACTTTATTTTTACGCCTATTATCATTCAACC-G
1 AAAGTATCGATACCTATATAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCAG
* *** * * * * *
4682790 ATAGATTTTTACCGTTATGAACATATATTTACCTAATACTCTAAAGTAATAGGTTTTGAAATTAC
66 -TAGATTTTTACCGTTATCATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTAT
* * ** * * *
4682855 AAGTATCAATAC-T-TTATATATGAGTATATATACTTTGTTGCGGGCAAATTGTTTGATATCCAT
130 AAGTATCGATACTTGTTATACAT--GTATCGATACTTT-TTGCGTGCAAATTGTTTGAGATGCAT
4682918 ACTAGAATA
192 ACTAGAATA
*
4682927 AAA-TATCGATACATATATAAAAAGTATCGA
1 AAAGTATCGATACCTATATAAAAAGTATCGA
4682957 AATTGGACAT
Statistics
Matches: 866, Mismatches: 140, Indels: 75
0.80 0.13 0.07
Matches are distributed among these distances:
197 1 0.00
198 21 0.02
199 296 0.34
200 298 0.34
201 66 0.08
202 3 0.00
203 1 0.00
204 1 0.00
206 5 0.01
208 8 0.01
210 1 0.00
212 2 0.00
213 30 0.03
214 1 0.00
215 127 0.15
216 5 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (200 bp):
AAAGTATCGATACCTATATAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCAG
TAGATTTTTACCGTTATCATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATA
AGTATCGATACTTGTTATACATGTATCGATACTTTTTGCGTGCAAATTGTTTGAGATGCATACTA
GAATA
Found at i:4682201 original size:199 final size:200
Alignment explanation
Indices: 4681714--4682960 Score: 1230
Period size: 199 Copynumber: 6.2 Consensus size: 200
4681704 TTTTAGATCG
* * * *
4681714 AAAGTATCGATACCTATACAAAAAGTATCAAT-ACTTATGTTTATGCCTATTATCATTAAACCAA
1 AAAGTATCGATACCTATATAAAAAGTATCGATAATTTATGTTTACGCCTATTATCATTAAACCAA
*
4681778 TATATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTA-A
66 TAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATA
* * * * * * * **
4681842 TAGTATCAATATTTGTGATATATGCAGCGATACTTTTTGCGTGAAAATTGTTTGAGAAACATACT
131 -AGTATCGATACTTGTTATACATGTATCGATACTTTTTGCGTGCAAATTGTTTGAGATGCATACT
*
4681907 AGACTA
195 AGAATA
* * * *
4681913 AAAGTATCGATACCTATATAAAAAGTATCGATACTCTATGTTTACACCTATTATCATTAAACCAG
1 AAAGTATCGATACCTATATAAAAAGTATCGATAATTTATGTTTACGCCTATTATCATTAAACCAA
* * * * *
4681978 TAGACTTTTACCGTTGATATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATA
66 TAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATA
* * *
4682043 AGTATCGATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTG-TTGAGAAGCATACTG
131 AGTATCGATACTTGTTATACATGTATCGATACTTTTTGCGTGCAAATTGTTTGAGATGCATACTA
*
4682107 GACTA
196 GAATA
* ** **
4682112 AAAGTATTGATACCTATGGAAAAAGTATCGATAATTTACATTTACGCCTATTATCATTAAACCAA
1 AAAGTATCGATACCTATATAAAAAGTATCGATAATTTATGTTTACGCCTATTATCATTAAACCAA
* * * * **
4682177 TAGATTTTTATCGTTTACATTGTAAATTTACATATTATTTTAAAGTAATAGGTTTATG-GTTTAT
66 TAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTT-CGAAATTAT
* * * * * * * *
4682241 AAGTATTGATACTTGTGATACGTGTATCAATAC-TTTTGCGTGCAAATTGTTTGTGTTGAATATT
130 AAGTATCGATACTTGTTATACATGTATCGATACTTTTTGCGTGCAAATTGTTTGAGATGCATA-C
4682305 TA-AATA
194 TAGAATA
* * * * * *
4682311 CAAGTATCGATACTTATATAATAAGTATCGATACA-TTATGATTACGCCTGTTATCATTAAACCG
1 AAAGTATCGATACCTATATAAAAAGTATCGATA-ATTTATGTTTACGCCTATTATCATTAAACCA
* * **
4682375 ATAGATTTTTACCGTTTTCATTGTAAAATTACCTATTACTTTAAAGTAATAAAATTTTCATTGTA
65 ATAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAAT--AGGTTTC---G--
* * * *
4682440 AAATTACCTATTACGGTAATAGATACTTGTTATACGTGCATCGATACTATTTTGCGTGCAATTTG
123 AAATTA--TA--A--GT-ATCGATACTTGTTATACATGTATCGATACT-TTTTGCGTGCAAATT-
* * *
4682505 GTTT-AGATGTACACTGGAATA
179 GTTTGAGATGCATACTAGAATA
* * * * * *
4682526 GAAGTAGCGATACTTATATAATAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCAG
1 AAAGTATCGATACCTATATAAAAAGTATCGATAATTTATGTTTACGCCTATTATCATTAAACCAA
* * * *
4682591 TAGATTTTTACCGTTTTCATTGTAAATTTACCTATTTCTTTAAAGAAATAGGTTTCAAAATTATA
66 TAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATA
* *
4682656 AGTA-CTGATACTTGTTATACGTGTATCAATACTTTTTGCGTGCAAATTGTTTGAGATGCATACT
131 AGTATC-GATACTTGTTATACATGTATCGATACTTTTTGCGTGCAAATTGTTTGAGATGCATACT
*
4682720 AGACTA
195 AGAATA
* * * ** * * * * * *
4682726 AAAGTATCAATACATATTTAGTACGTATTGATACTTTATTTTTACGCCTATTATCATTCAACCGA
1 AAAGTATCGATACCTATATAAAAAGTATCGATAATTTATGTTTACGCCTATTATCATTAAACCAA
* * * *
4682791 TAGATTTTTACCGTTATGAACA---TATATTTACCTAATACTCTAAAGTAATAGGTTTTGAAATT
66 TAGATTTTTACCGTT-T--ACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATT
* * * ** * * *
4682853 ACAAGTATCAATAC-T-TTATATATGAGTATATATACTTTGTTGCGGGCAAATTGTTTGATATCC
128 ATAAGTATCGATACTTGTTATACAT--GTATCGATACTTT-TTGCGTGCAAATTGTTTGAGATGC
4682916 ATACTAGAATA
190 ATACTAGAATA
*
4682927 AAA-TATCGATACATATATAAAAAGTATCGA-AATT
1 AAAGTATCGATACCTATATAAAAAGTATCGATAATT
4682961 GGACATTTTC
Statistics
Matches: 867, Mismatches: 146, Indels: 70
0.80 0.13 0.06
Matches are distributed among these distances:
198 21 0.02
199 299 0.34
200 297 0.34
201 67 0.08
202 2 0.00
203 3 0.00
204 1 0.00
206 5 0.01
208 8 0.01
210 1 0.00
212 2 0.00
213 30 0.03
214 1 0.00
215 126 0.15
216 4 0.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (200 bp):
AAAGTATCGATACCTATATAAAAAGTATCGATAATTTATGTTTACGCCTATTATCATTAAACCAA
TAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATA
AGTATCGATACTTGTTATACATGTATCGATACTTTTTGCGTGCAAATTGTTTGAGATGCATACTA
GAATA
Found at i:4693735 original size:24 final size:24
Alignment explanation
Indices: 4693708--4693758 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
4693698 ATAAATGAAG
*
4693708 AAAAATTAAGGAAA-AT-AACAAGT
1 AAAAA-TAAGAAAATATGAACAAGT
4693731 AAAAATAAGAAAATATGAACAAGT
1 AAAAATAAGAAAATATGAACAAGT
4693755 AAAA
1 AAAA
4693759 TAAAAATGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 7 0.28
23 7 0.28
24 11 0.44
ACGTcount: A:0.69, C:0.04, G:0.12, T:0.16
Consensus pattern (24 bp):
AAAAATAAGAAAATATGAACAAGT
Found at i:4701714 original size:200 final size:194
Alignment explanation
Indices: 4701208--4701731 Score: 554
Period size: 200 Copynumber: 2.7 Consensus size: 194
4701198 TGTTTTCATT
* * * * * *
4701208 TTTTTTCTTTTCTTTTCATTTCATAAAGTACCGATACTATGATATATATACTTATAAAAGTTTCG
1 TTTTTTCATTTCTTTTAAATTCCTAAAGTACCGATACTTTGATA-ATATACTTATAAAAGTATCG
* * * * *
4701273 ATAC--CGTCAACATATCCGGTAGCGCTTTACCAATTTTGTCATATTGAAACTGGTTATGTCAAA
65 ATACAACGTCAACAT-TCCGGTAACGCTTTACCAATTTTGTCAAATTGAAACCGATTTTGTCAAA
* * *
4701336 TTTCAACACGTTATATTGTCATGTATCAATACATGTGTCTAAGATATCGATACTTTATAGGCTCT
129 CTTCAACACGTTATATTGTCATGTATCAATACATGTGTCTAAGATATCCATACTTTATAGACTCT
4701401 A
194 A
* * * * * *
4701402 TTATTGCAGTTCTTTTAAATTCCTAAAATACCGATACTTTGGTGAATATACTTATAAAAGTATCC
1 TTTTTTCATTTCTTTTAAATTCCTAAAGTACCGATACTTTGAT-AATATACTTATAAAAGTATCG
* * *
4701467 ATACTAACGTCAACCATTCCGGTATCACTTTATCAATTTTGTCAAATTGAAACCGATTTTGTCAA
65 ATAC-AACGTCAA-CATTCCGGTAACGCTTTACCAATTTTGTCAAATTGAAACCGATTTTGTCAA
** * *
4701532 ACTTCAACTTGTTATATTGTCATGTATCGATACATGTGTGTAA-AGTATCCATACTTT-TGAGAC
128 ACTTCAACACGTTATATTGTCATGTATCAATACATGTGTCTAAGA-TATCCATACTTTAT-AGAC
* *
4701595 ATTTTCC
191 --TCT-A
* *
4701602 TTTTTTCATTTCTTTTAAATTCCTACAGTACCGATACTTTGATACATATACTTATAAACGTATCG
1 TTTTTTCATTTCTTTTAAATTCCTAAAGTACCGATACTTTGATA-ATATACTTATAAAAGTATCG
** * * * *
4701667 ATACAAATTTCAATAATTCCGGTAACGCTTTACCGATTTTCTCAAATTAAAACCGGA-TTTGTCA
65 ATAC-AACGTCAA-CATTCCGGTAACGCTTTACCAATTTTGTCAAATTGAAACC-GATTTTGTCA
4701731 A
127 A
4701732 TTTCCAATTG
Statistics
Matches: 271, Mismatches: 47, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
194 55 0.20
195 1 0.00
196 2 0.01
197 99 0.37
198 3 0.01
199 3 0.01
200 106 0.39
201 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (194 bp):
TTTTTTCATTTCTTTTAAATTCCTAAAGTACCGATACTTTGATAATATACTTATAAAAGTATCGA
TACAACGTCAACATTCCGGTAACGCTTTACCAATTTTGTCAAATTGAAACCGATTTTGTCAAACT
TCAACACGTTATATTGTCATGTATCAATACATGTGTCTAAGATATCCATACTTTATAGACTCTA
Found at i:4724327 original size:39 final size:39
Alignment explanation
Indices: 4724138--4724320 Score: 249
Period size: 39 Copynumber: 4.7 Consensus size: 39
4724128 CATGTACACC
* *
4724138 CAGTAAGGACTTACCCTGTGCACAAAGCAGAGGAGCCTG
1 CAGTAAGGATTTACCCTGAGCACAAAGCAGAGGAGCCTG
* * * *
4724177 CAGTAAGGATTTATCATGTGCACAAAGAAGAGGAGCCTG
1 CAGTAAGGATTTACCCTGAGCACAAAGCAGAGGAGCCTG
* * * * *
4724216 CAATAAGGATTTACCCTGAGCACAAACCAAAGGAGCATA
1 CAGTAAGGATTTACCCTGAGCACAAAGCAGAGGAGCCTG
*
4724255 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTG
1 CAGTAAGGATTTACCCTGAGCACAAAGCAGAGGAGCCTG
*
4724294 CAGTAAGGATTTACCCTGAGCATAAAG
1 CAGTAAGGATTTACCCTGAGCACAAAG
4724321 TCGAGGAACT
Statistics
Matches: 123, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 123 1.00
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (39 bp):
CAGTAAGGATTTACCCTGAGCACAAAGCAGAGGAGCCTG
Found at i:4725691 original size:29 final size:30
Alignment explanation
Indices: 4725649--4725705 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
4725639 AAGATAATTT
* * *
4725649 TAATCAAAATTTCACTTTGGTCCCCAAATG
1 TAATCAAAAATTCAATTTAGTCCCCAAATG
*
4725679 TAAT-AAAAATTCAATTTAGTCCTCAAA
1 TAATCAAAAATTCAATTTAGTCCCCAAA
4725706 AAAATTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (30 bp):
TAATCAAAAATTCAATTTAGTCCCCAAATG
Found at i:4730674 original size:39 final size:39
Alignment explanation
Indices: 4730481--4730676 Score: 225
Period size: 39 Copynumber: 5.0 Consensus size: 39
4730471 ACCATACACC
* * *
4730481 CAGTAAGGACTTACCTTGTA-CACAAAGCAAAGAAGCATG
1 CAGTAAGGACTTACCCTG-AGCACAAAGCAGAGAAGCCTG
* * * *
4730520 CAGTAAGGACTTACCCTGTGCACAAAACAGAGGAGCCTT
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGAAGCCTG
* *
4730559 CTGTAAGGACTTACCCTGAGCACAAAGCATA-AGAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGA-AGCCTG
* * * *
4730598 CAGTAAGGACTTACCCTGAGCGCAAAGTAGAGGAGCCTA
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGAAGCCTG
* *
4730637 CAGTAAGGACTTACCATGAGCACAAAGCCGAGAAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGCAGAGAAGCCTG
4730676 C
1 C
4730677 GAAAAGCAGT
Statistics
Matches: 129, Mismatches: 25, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
39 129 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.16
Consensus pattern (39 bp):
CAGTAAGGACTTACCCTGAGCACAAAGCAGAGAAGCCTG
Found at i:4730674 original size:78 final size:78
Alignment explanation
Indices: 4730481--4730676 Score: 261
Period size: 78 Copynumber: 2.5 Consensus size: 78
4730471 ACCATACACC
* * *
4730481 CAGTAAGGACTTACCTTGTA-CACAAAGCAAAGAAGCATGCAGTAAGGACTTACCCTGTGCACAA
1 CAGTAAGGACTTACCATG-AGCACAAAGCAAAGAAGCCTGCAGTAAGGACTTACCCTGAGCACAA
*
4730545 AACAGAGGAGCCTT
65 AACAGAGGAGCCTA
* * *
4730559 CTGTAAGGACTTACCCTGAGCACAAAGCATAAG-AGCCTGCAGTAAGGACTTACCCTGAGCGCAA
1 CAGTAAGGACTTACCATGAGCACAAAGCA-AAGAAGCCTGCAGTAAGGACTTACCCTGAGCACAA
**
4730623 AGTAGAGGAGCCTA
65 AACAGAGGAGCCTA
**
4730637 CAGTAAGGACTTACCATGAGCACAAAGCCGAGAAGCCTGC
1 CAGTAAGGACTTACCATGAGCACAAAGCAAAGAAGCCTGC
4730677 GAAAAGCAGT
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
77 3 0.03
78 97 0.94
79 3 0.03
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.16
Consensus pattern (78 bp):
CAGTAAGGACTTACCATGAGCACAAAGCAAAGAAGCCTGCAGTAAGGACTTACCCTGAGCACAAA
ACAGAGGAGCCTA
Found at i:4742081 original size:3 final size:3
Alignment explanation
Indices: 4742073--4742135 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
4742063 AATAAAGAAG
4742073 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4742121 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
4742136 AATAATATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4759989 original size:15 final size:14
Alignment explanation
Indices: 4759971--4760000 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4759961 AGGAAAAAAT
4759971 AAATAAATAAAATAA
1 AAATAAAT-AAATAA
4759986 AAATAAATAAATAA
1 AAATAAATAAATAA
4760000 A
1 A
4760001 TACAATTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAATAAATAA
Found at i:4759997 original size:27 final size:28
Alignment explanation
Indices: 4759943--4760002 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
4759933 TTAAATGGTG
*
4759943 AAATATATAAATATAAAAAGGAAAAAAT
1 AAATAAATAAATATAAAAAGGAAAAAAT
*
4759971 AAATAAATAAA-ATAAAAA-TAAATAAAT
1 AAATAAATAAATATAAAAAGGAAA-AAAT
4759998 AAATA
1 AAATA
4760003 CAATTAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.10
27 16 0.55
28 10 0.34
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (28 bp):
AAATAAATAAATATAAAAAGGAAAAAAT
Found at i:4760095 original size:15 final size:15
Alignment explanation
Indices: 4760075--4760105 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4760065 AAAAAATAAA
4760075 AAATGTTAAGAAAAT
1 AAATGTTAAGAAAAT
*
4760090 AAATGTTAATAAAAT
1 AAATGTTAAGAAAAT
4760105 A
1 A
4760106 CAAAAGACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
AAATGTTAAGAAAAT
Found at i:4761258 original size:7 final size:7
Alignment explanation
Indices: 4761246--4761324 Score: 50
Period size: 7 Copynumber: 10.3 Consensus size: 7
4761236 TGAAATTGAG
4761246 AAAAAAT
1 AAAAAAT
4761253 AAAAAAT
1 AAAAAAT
*
4761260 AAATAAGT
1 AAA-AAAT
4761268 AAATAAAAT
1 -AA-AAAAT
*
4761277 AGAAAAT
1 AAAAAAT
*
4761284 AGAAAAT
1 AAAAAAT
*
4761291 AGAAAAT
1 AAAAAAT
*
4761298 AGAAAAT
1 AAAAAAT
4761305 CAAATCAAAT
1 -AAA--AAAT
4761315 AAAATAAT
1 AAAA-AAT
4761323 AA
1 AA
4761325 TATGTATATA
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
7 37 0.61
8 11 0.18
9 8 0.13
10 5 0.08
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (7 bp):
AAAAAAT
Found at i:4761291 original size:14 final size:14
Alignment explanation
Indices: 4761272--4761304 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
4761262 ATAAGTAAAT
4761272 AAAATAGAAAATAG
1 AAAATAGAAAATAG
4761286 AAAATAGAAAATAG
1 AAAATAGAAAATAG
4761300 AAAAT
1 AAAAT
4761305 CAAATCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (14 bp):
AAAATAGAAAATAG
Found at i:4761473 original size:41 final size:39
Alignment explanation
Indices: 4761396--4761714 Score: 146
Period size: 38 Copynumber: 8.4 Consensus size: 39
4761386 AAAAATCTAC
* * *
4761396 ATGTTTTCAAAAAT-CA--TTTTAAAACCT-TATAGTAT
1 ATGTTTTCAAAAATATATGTTTTAAAAACTATATATTAT
*
4761431 ATGTTTTCAAAAATATATTTTTTAAAAAAACTATATATTAT
1 ATGTTTTCAAAAATATATGTTTT--AAAAACTATATATTAT
* *
4761472 ATGTTTTTAAAAA-ATATGTTTTCAAAACTATATTATATAT
1 ATGTTTTCAAAAATATATGTTTTAAAAACTATA-TAT-TAT
*
4761512 ATACGTTTTC-AAAA-ATA--TTTTGAAAACTATATATTATGT
1 AT--GTTTTCAAAAATATATGTTTTAAAAACTATATATTA--T
* *
4761551 ACGTTTTC-AAAA-ATA--TTTTAAAAATTATATTATATAT
1 ATGTTTTCAAAAATATATGTTTTAAAAACTATA-TAT-TAT
* * ** * *
4761588 ATATTTTC-TAAA-A-CCGTTTTCAAAACTATATAATAT
1 ATGTTTTCAAAAATATATGTTTTAAAAACTATATATTAT
* *
4761624 ATGTATTTTC-AAAA-AT-CGCTTTT-AAAACTATATAATAT
1 ATG--TTTTCAAAAATATATG-TTTTAAAAACTATATATTAT
* * *
4761662 ATATTTT-TAAAA-ATA--TTTTCAAAACTATATATTAT
1 ATGTTTTCAAAAATATATGTTTTAAAAACTATATATTAT
*
4761697 ATACATTTTCAAAAATAT
1 AT--GTTTTCAAAAATAT
4761715 TTTCAAAGCT
Statistics
Matches: 234, Mismatches: 23, Indels: 50
0.76 0.07 0.16
Matches are distributed among these distances:
34 4 0.02
35 30 0.13
36 16 0.07
37 45 0.19
38 63 0.27
39 26 0.11
40 19 0.08
41 26 0.11
42 5 0.02
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.45
Consensus pattern (39 bp):
ATGTTTTCAAAAATATATGTTTTAAAAACTATATATTAT
Found at i:4761563 original size:37 final size:35
Alignment explanation
Indices: 4761399--4761897 Score: 353
Period size: 39 Copynumber: 13.3 Consensus size: 35
4761389 AATCTACATG
* *
4761399 TTTTCAAAAATCATTTT-AAAACCT-TATAGTATATG
1 TTTTCAAAAAT-ATTTTCAAAA-CTATATATTATATA
* *
4761434 TTTTCAAAAATATATTTTTTAAAAAAACTATATATTATATGT
1 TTTTC-AAAA-ATA--TTTT--CAAAACTATATATTATAT-A
*
4761476 TTTTAAAAAATATGTTTTCAAAACTATATTATATATATA
1 TTTTCAAAAATA--TTTTCAAAACTATA-TAT-TATATA
* *
4761515 CGTTTTCAAAAATATTTTGAAAACTATATATTATGTA
1 --TTTTCAAAAATATTTTCAAAACTATATATTATATA
* *
4761552 CGTTTTCAAAAATATTTTAAAAATTATATTATATATATA
1 --TTTTCAAAAATATTTTCAAAACTATA-TAT-TATATA
*** *
4761591 TTTTCTAAAACCGTTTTCAAAACTATATAATATATGTA
1 TTTTC-AAAAATATTTTCAAAACTATAT-AT-TATATA
* *
4761629 TTTTCAAAAATCGCTTTT-AAAACTATATAATATATA
1 TTTTCAAAAAT--ATTTTCAAAACTATATATTATATA
*
4761665 TTTTTAAAAATATTTTCAAAACTATATATTATATACA
1 TTTTCAAAAATATTTTCAAAACTATATATTATAT--A
*
4761702 TTTTCAAAAATATTTTCAAAGCTATATATATTATATA
1 TTTTCAAAAATATTTTCAAAAC--TATATATTATATA
* * *
4761739 TATGTTCAAAAATATTTTC-AAATTATATAATATATG
1 T-T-TTCAAAAATATTTTCAAAACTATATATTATATA
* * *
4761775 TTTTC-AAAATGTTTTCAATACTATATAATATATA
1 TTTTCAAAAATATTTTCAAAACTATATATTATATA
4761809 TTTTCAAAAA-ACGTTTTCAAAAACTATATATTATATATA
1 TTTTCAAAAATA--TTTTC-AAAACTATATA-T-TATATA
** * *
4761848 TTTTTTTAAAATGTTTTTAAAAACTATATTATATATATA
1 -TTTTCAAAAAT-ATTTTCAAAACTATA-TAT-TATATA
4761887 TATTTCAAAAA
1 T-TTTCAAAAA
4761898 CTGATTTTTT
Statistics
Matches: 381, Mismatches: 45, Indels: 72
0.77 0.09 0.14
Matches are distributed among these distances:
33 10 0.03
34 26 0.07
35 26 0.07
36 37 0.10
37 77 0.20
38 62 0.16
39 82 0.22
40 29 0.08
41 28 0.07
42 4 0.01
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (35 bp):
TTTTCAAAAATATTTTCAAAACTATATATTATATA
Found at i:4761718 original size:12 final size:12
Alignment explanation
Indices: 4761662--4761721 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
4761652 TATATAATAT
*
4761662 ATATTTTTAAAA
1 ATATTTTCAAAA
4761674 ATATTTTCAAAA
1 ATATTTTCAAAA
* * *
4761686 CTATATATT-ATAT
1 --ATATTTTCAAAA
*
4761699 ACATTTTCAAAA
1 ATATTTTCAAAA
4761711 ATATTTTCAAA
1 ATATTTTCAAA
4761722 GCTATATATA
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
11 5 0.14
12 23 0.64
13 2 0.06
14 6 0.17
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (12 bp):
ATATTTTCAAAA
Found at i:4761775 original size:32 final size:33
Alignment explanation
Indices: 4761604--4761844 Score: 112
Period size: 37 Copynumber: 6.7 Consensus size: 33
4761594 TCTAAAACCG
*
4761604 TTTTCAAAACTATATAATATATGTATTTTCAAAA-A
1 TTTTCAATACTATATAATATATG---TTTCAAAATA
* * * *
4761639 TCGCTTTTAAAACTATATAATATATATTTTTAAAAATA
1 T---TTTCAATACTATAT-A-ATATATGTTTCAAAATA
*
4761677 TTTTCAAAACTATATATTATATACAT-TTTCAAAAATA
1 TTTTCAATACTATATA--ATAT--ATGTTTC-AAAATA
*
4761714 TTTTCAA-AGCTATATATATTATATATATGTTCAAAAATA
1 TTTTCAATA-C--TATATA--ATATATGT-TTC-AAAATA
* *
4761753 TTTTCAA-ATTATATAATATATGTTTTCAAAATG
1 TTTTCAATACTATATAATATATG-TTTCAAAATA
* *
4761786 TTTTCAATACTATATAATATATATTTTCAAAAAA
1 TTTTCAATACTATATAATATAT-GTTTCAAAATA
* *
4761820 CGTTTTCAAAAACTATATATTATAT
1 --TTTTC-AATACTATATAATATAT
4761845 ATATTTTTTT
Statistics
Matches: 171, Mismatches: 14, Indels: 40
0.76 0.06 0.18
Matches are distributed among these distances:
33 12 0.07
34 31 0.18
35 20 0.12
36 15 0.09
37 40 0.23
38 16 0.09
39 31 0.18
40 6 0.04
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (33 bp):
TTTTCAATACTATATAATATATGTTTCAAAATA
Found at i:4762390 original size:21 final size:21
Alignment explanation
Indices: 4762374--4762427 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
4762364 GCGTTGCATT
4762374 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
4762395 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
4762416 TCGCGTTGCGAT
1 TCGCGTTGCGAT
4762428 TTTCCATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:4762535 original size:43 final size:41
Alignment explanation
Indices: 4762419--4762571 Score: 218
Period size: 41 Copynumber: 3.7 Consensus size: 41
4762409 TTGAAAATCG
* *
4762419 CGTTGCGATTTTCC-ATTTCGCGTTACGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTGT
4762461 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
* *
4762502 TGTTGCGATAGTTTACAAATTCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGAT--TTTCCAAATTCGTTGCGATAGTCTACAGTTGT
*
4762545 CGTTGGGATTTTCCAAATTCGTTGCGA
1 CGTTGCGATTTTCCAAATTCGTTGCGA
4762572 AAATTAAAAA
Statistics
Matches: 101, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
41 46 0.46
42 14 0.14
43 41 0.41
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
Found at i:4763224 original size:6 final size:6
Alignment explanation
Indices: 4763213--4763239 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4763203 TCTCGTCTCG
4763213 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
4763240 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:4769931 original size:20 final size:20
Alignment explanation
Indices: 4769906--4769950 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
4769896 AATTGGTCGT
*
4769906 TACTAAGCCTATGGTATCGA
1 TACTAAGCCTATGGTATCAA
4769926 TACTAAGCCTATGGTATCAA
1 TACTAAGCCTATGGTATCAA
4769946 TACTA
1 TACTA
4769951 CTATGTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (20 bp):
TACTAAGCCTATGGTATCAA
Found at i:4772625 original size:14 final size:14
Alignment explanation
Indices: 4772588--4772626 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4772578 ATCGATCCTA
*
4772588 TTTATCTATATTAT
1 TTTATCTATTTTAT
*
4772602 TCTATCTATTTTAT
1 TTTATCTATTTTAT
*
4772616 TTTATTTATTT
1 TTTATCTATTT
4772627 AAACTGAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATCTATTTTAT
Found at i:4773492 original size:26 final size:26
Alignment explanation
Indices: 4773463--4773525 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
4773453 TTTATTTTAT
4773463 TTTATTTATTTAAATTGTGAGTTAGG
1 TTTATTTATTTAAATTGTGAGTTAGG
4773489 TTTATTTATTTAAATTGTGAGTTAGG
1 TTTATTTATTTAAATTGTGAGTTAGG
4773515 TTTATTTATTT
1 TTTATTTATTT
4773526 GACAATTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (26 bp):
TTTATTTATTTAAATTGTGAGTTAGG
Found at i:4776706 original size:18 final size:19
Alignment explanation
Indices: 4776668--4776706 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
4776658 TGGTAATTTC
*
4776668 TTTAACGAATGTATCTTGAA
1 TTTAACCAATGTA-CTTGAA
4776688 TTTAACCAATGTA-TTGAA
1 TTTAACCAATGTACTTGAA
4776706 T
1 T
4776707 GATGTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (19 bp):
TTTAACCAATGTACTTGAA
Found at i:4779478 original size:13 final size:12
Alignment explanation
Indices: 4779460--4779491 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
4779450 GAGGAATTTC
4779460 AAAAAAATGAAA
1 AAAAAAATGAAA
4779472 AAAAAAATGAAA
1 AAAAAAATGAAA
4779484 AACAAAAA
1 AA-AAAAA
4779492 AAGAGAGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.84, C:0.03, G:0.06, T:0.06
Consensus pattern (12 bp):
AAAAAAATGAAA
Found at i:4780341 original size:19 final size:19
Alignment explanation
Indices: 4780303--4780346 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
4780293 ATTGAAGTTC
* *
4780303 TACTTTTCTTTCATCCTTT
1 TACTTTTATTTCATCATTT
*
4780322 TACTTTTATTTCATTATTT
1 TACTTTTATTTCATCATTT
4780341 T-CTTTT
1 TACTTTT
4780347 TATAATGCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (19 bp):
TACTTTTATTTCATCATTT
Found at i:4782349 original size:17 final size:17
Alignment explanation
Indices: 4782326--4782370 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
4782316 TAACACTAAC
*
4782326 ATTTTATTTTTATTGTT
1 ATTTTATTTTTATTGCT
*
4782343 TTTTTATTTTTATTGCT
1 ATTTTATTTTTATTGCT
4782360 ATTTTATTTTT
1 ATTTTATTTTT
4782371 GTTATTTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (17 bp):
ATTTTATTTTTATTGCT
Done.