Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 11 of 121
Found at i:1594199 original size:18 final size:19
Alignment explanation
Indices: 1594157--1594206 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
1594147 TACGTATATA
*
1594157 TATTTTT-TTTATCTTTTT
1 TATTTTTATTTATCTTTTG
1594175 TA-TTTTATTTAT-TTTTG
1 TATTTTTATTTATCTTTTG
*
1594192 TATTTTTACTTATCT
1 TATTTTTATTTATCT
1594207 AATTATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 10 0.37
18 16 0.59
19 1 0.04
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (19 bp):
TATTTTTATTTATCTTTTG
Found at i:1595165 original size:23 final size:23
Alignment explanation
Indices: 1595122--1595165 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1595112 CTCCAGGTTT
* *
1595122 TTTTTTTTTTTTCTTTCTTTGAA
1 TTTTTTTTCTTTCTTTATTTGAA
*
1595145 TTTTTTTTCTTTGTTTATTTG
1 TTTTTTTTCTTTCTTTATTTG
1595166 TTTATTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (23 bp):
TTTTTTTTCTTTCTTTATTTGAA
Found at i:1595347 original size:57 final size:58
Alignment explanation
Indices: 1595256--1595667 Score: 546
Period size: 57 Copynumber: 6.9 Consensus size: 58
1595246 TAAAAATAAA
*
1595256 AAATTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTCAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* * * *
1595315 AAATTTC-CAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1595372 AAATTTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTC--AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* *
1595432 AAATTTTC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATTAATATCAATTTTCCTCAGAAAT
1 AAA-TTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAG------TATCAATTTTCCTTAGAAAT
1595495 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAATAT
1 AAATTTC-AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG-AA-AT
*
1595559 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAATTTC-AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1595618 AAATTTTC-AAAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCC
1 AAA-TTTCAAAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTCC
1595668 CTACACAAGA
Statistics
Matches: 319, Mismatches: 14, Indels: 41
0.85 0.04 0.11
Matches are distributed among these distances:
57 79 0.25
58 43 0.13
59 24 0.08
60 55 0.17
61 5 0.02
62 6 0.02
63 24 0.08
64 55 0.17
65 28 0.09
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (58 bp):
AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
Found at i:1595591 original size:122 final size:117
Alignment explanation
Indices: 1595256--1595667 Score: 575
Period size: 122 Copynumber: 3.4 Consensus size: 117
1595246 TAAAAATAAA
* *
1595256 AAATTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AA-ATAAAT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATATAAAT
*
1595319 TTCCAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAAT
66 TT-CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
*
1595372 AAATTTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATA-AAT
1 AAATTTC-AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATATAAA
1595436 TTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATTAATATCAATTTTCCTCAGAAAT
65 TTTCAAAAAATATTTTTGGGGAAAAGTTGAAAG------TATCAATTTTCCTCAGAAAT
1595495 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAATATA
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AGAAATATA
* * *
1595560 AATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
63 AATTTC---AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1595618 AAATTTTC--AAAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCC
1 AAA-TTTCAAAAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTCC
1595668 CTACACAAGA
Statistics
Matches: 270, Mismatches: 8, Indels: 30
0.88 0.03 0.10
Matches are distributed among these distances:
116 6 0.02
117 76 0.28
118 7 0.03
119 1 0.00
121 3 0.01
122 84 0.31
123 48 0.18
124 4 0.01
125 7 0.03
126 6 0.02
129 28 0.10
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (117 bp):
AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATATAAAT
TTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
Found at i:1599283 original size:48 final size:48
Alignment explanation
Indices: 1599212--1599307 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
1599202 AGGTCCTTGA
* *
1599212 ACACATAAAGGATGCTGTGAGACTTCGATTACAGGGACTAAGTGAGAT
1 ACACATAAAAGATGCTGTGAGACTTCGATTACAGGGACTAAGTCAGAT
* *
1599260 ACACATAAAAGATGTTGTGAGACTTCGATTATAGGGACTAAGTCAGAT
1 ACACATAAAAGATGCTGTGAGACTTCGATTACAGGGACTAAGTCAGAT
1599308 TGCTACGGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (48 bp):
ACACATAAAAGATGCTGTGAGACTTCGATTACAGGGACTAAGTCAGAT
Found at i:1603533 original size:8 final size:8
Alignment explanation
Indices: 1603502--1603563 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
1603492 TTAAACTTCC
*
1603502 AAATATAA
1 AAATTTAA
*
1603510 AAATTCAA
1 AAATTTAA
* *
1603518 AATTTTTAC
1 AA-ATTTAA
1603527 AAATTTAA
1 AAATTTAA
1603535 AAATTTAA
1 AAATTTAA
*
1603543 AAA-TAAA
1 AAATTTAA
1603550 AAATATTAA
1 AAAT-TTAA
1603559 AAATT
1 AAATT
1603564 AATTAATTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
7 6 0.14
8 24 0.57
9 12 0.29
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (8 bp):
AAATTTAA
Found at i:1604155 original size:14 final size:15
Alignment explanation
Indices: 1604131--1604160 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1604121 AAAATTCTTT
1604131 TTATATTATAATCAA
1 TTATATTATAATCAA
1604146 TTAT-TTATAATCAA
1 TTATATTATAATCAA
1604160 T
1 T
1604161 AGTTCGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATATTATAATCAA
Found at i:1607630 original size:14 final size:15
Alignment explanation
Indices: 1607605--1607633 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1607595 TATTTTGAAT
1607605 TATAATTAATTATAA
1 TATAATTAATTATAA
1607620 TATAA-TAATTATAA
1 TATAATTAATTATAA
1607634 GTAAATGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAATTAATTATAA
Found at i:1608879 original size:22 final size:22
Alignment explanation
Indices: 1608848--1608894 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1608838 GCCAATTTAA
1608848 ATATACATATATACATACATAC
1 ATATACATATATACATACATAC
* * *
1608870 ATATATATATATATATAGATAC
1 ATATACATATATACATACATAC
1608892 ATA
1 ATA
1608895 AGCGCCAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (22 bp):
ATATACATATATACATACATAC
Found at i:1608886 original size:8 final size:8
Alignment explanation
Indices: 1608848--1608884 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
1608838 GCCAATTTAA
1608848 ATATACAT
1 ATATACAT
1608856 ATATACAT
1 ATATACAT
*
1608864 ACATACAT
1 ATATACAT
*
1608872 ATATATAT
1 ATATACAT
1608880 ATATA
1 ATATA
1608885 TAGATACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATACAT
Found at i:1612940 original size:153 final size:153
Alignment explanation
Indices: 1612563--1613019 Score: 767
Period size: 152 Copynumber: 3.0 Consensus size: 153
1612553 TTTACCAAGT
* *
1612563 AATTAGTTGTTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCA-AAAAATTGAGAAAATTC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAAATTGAGAAAATTC
* *
1612627 CCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGGATTTA
66 CCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAA
*
1612692 TTAAAGAAAAAACAAAATCATCC
131 TTAAAAAAAAAACAAAATCATCC
*
1612715 AATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAG-AAAATTGAGAAAATTC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAAATTGAGAAAATTC
*
1612779 CCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAA
66 CCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAA
1612844 TTAAAAAAAAATACAAAATCATCC
131 TTAAAAAAAAA-ACAAAATCATCC
1612868 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATAC-TTTAGCAGAAAAATTGAGAAAATTC
1 AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAAATTGAGAAAATTC
* *
1612932 CCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGTGATT
66 CCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCG-GATT
*
1612997 AATTAAAAAAAAAATCAAGATCA
129 AATTAAAAAAAAAA-CAAAATCA
1613020 AAAATCAAAA
Statistics
Matches: 287, Mismatches: 12, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
152 140 0.49
153 98 0.34
154 25 0.09
155 24 0.08
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (153 bp):
AATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAAATTGAGAAAATTC
CCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAA
TTAAAAAAAAAACAAAATCATCC
Found at i:1613030 original size:1 final size:1
Alignment explanation
Indices: 1613026--1613054 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
1613016 ATCAAAAATC
1613026 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1613055 CCTGGAGCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1613404 original size:20 final size:20
Alignment explanation
Indices: 1613379--1613427 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
1613369 CGGTGGGATT
* *
1613379 TCGCCGGATTCTGGAAATTC
1 TCGCCGGAATCTGGAAAATC
1613399 TCGCCGGAATCTGGAAAATC
1 TCGCCGGAATCTGGAAAATC
1613419 TCGCCGGAA
1 TCGCCGGAA
1613428 GTTCGCCGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (20 bp):
TCGCCGGAATCTGGAAAATC
Found at i:1613604 original size:26 final size:25
Alignment explanation
Indices: 1613569--1613623 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
1613559 AATCTGGAAA
1613569 TTTCCCAGAAATTTCCAGAAAATTT
1 TTTCCCAGAAATTTCCAGAAAATTT
* *
1613594 TTTCGCCAGAAATTTCTAGAAATTTT
1 TTTC-CCAGAAATTTCCAGAAAATTT
1613620 TTTC
1 TTTC
1613624 TCACTCCCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (25 bp):
TTTCCCAGAAATTTCCAGAAAATTT
Found at i:1613955 original size:37 final size:39
Alignment explanation
Indices: 1613904--1613976 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 39
1613894 ATACTAGATA
*
1613904 ATAATCAGATAAATCA-AA-AGAT-ATAAAAAAAATCTG
1 ATAATCAGAAAAATCAGAACAGATAATAAAAAAAATCTG
*
1613940 ATAATCAGGAAAAATCAGAACAGATAATTAAAAAAAT
1 ATAATCA-GAAAAATCAGAACAGATAATAAAAAAAAT
1613977 AATAATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 8 0.26
38 2 0.06
39 4 0.13
40 10 0.32
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.21
Consensus pattern (39 bp):
ATAATCAGAAAAATCAGAACAGATAATAAAAAAAATCTG
Found at i:1613980 original size:3 final size:3
Alignment explanation
Indices: 1613974--1614144 Score: 63
Period size: 3 Copynumber: 55.3 Consensus size: 3
1613964 TAATTAAAAA
* **
1613974 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA- GAT AA- ACCC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * *
1614017 AAGT ATAT ATT AAA AAA AAA AAT AAT AAT AAT AAT AAT AAAT ATAT AACT
1 AA-T A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT AA-T
* * *
1614067 ATAT ACAT -AT AA- ATCT AAT -CT AAT AA- AAA AAT AAAT AAAT ATAT
1 A-AT A-AT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT -AAT A-AT
1614111 ACAT AAT AAT AAT AAT AAT AA- AAT ACAT AA- AAT A
1 A-AT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT A
1614145 CAAAAGAAGA
Statistics
Matches: 132, Mismatches: 16, Indels: 40
0.70 0.09 0.21
Matches are distributed among these distances:
2 14 0.11
3 83 0.63
4 33 0.25
5 2 0.02
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1614041 original size:60 final size:60
Alignment explanation
Indices: 1613969--1614137 Score: 171
Period size: 63 Copynumber: 2.7 Consensus size: 60
1613959 ACAGATAATT
*
1613969 AAAAAAATAATAATAATAATAATAATAATAATAAAATA-AGATAAACCCAAGTATATATTAAA
1 AAAAAAAAAATAATAATAATAATAATAATAATAAAATACAGATAAACCCAA-TATA-A-TAAA
* * * * *
1614031 AAAAAAAATAATAATAATAATAATAAATATATAACT-ATATACATATAAATCTAATCTAATAAA
1 AAAAAAAA-AATAATAATAATAAT-AATA-ATAA-TAAAATACAGATAAACCCAATATAATAAA
1614094 AAAATAAATAAATATATACATAATAATAATAATAATAAAATACA
1 AAAA-AAA-AAATA-ATA-ATAATAATAATAATAATAAAATACA
1614138 TAAAATACAA
Statistics
Matches: 90, Mismatches: 7, Indels: 18
0.78 0.06 0.16
Matches are distributed among these distances:
62 7 0.08
63 24 0.27
64 22 0.24
65 19 0.21
66 18 0.20
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (60 bp):
AAAAAAAAAATAATAATAATAATAATAATAATAAAATACAGATAAACCCAATATAATAAA
Found at i:1614336 original size:1 final size:1
Alignment explanation
Indices: 1614332--1614416 Score: 80
Period size: 1 Copynumber: 85.0 Consensus size: 1
1614322 TTATTTTTGA
* * * ** ** * * *
1614332 TTTTTTTTATTTTTGTTTTTATTTTTTTTTGATTTTTTTGATTTTTTGTTTTTTTGTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1614397 TTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTT
1614417 GGCCGAAGCT
Statistics
Matches: 66, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:1614340 original size:16 final size:15
Alignment explanation
Indices: 1614319--1614414 Score: 108
Period size: 16 Copynumber: 6.3 Consensus size: 15
1614309 CAACTCAACA
1614319 TTTTTATTTTTGATTT
1 TTTTTATTTTTG-TTT
1614335 TTTTTATTTTTGTTT
1 TTTTTATTTTTGTTT
*
1614350 TTATTTTTTTTTGATTT
1 TT-TTTATTTTTG-TTT
*
1614367 TTTTGATTTTT-TGTT
1 TTTTTATTTTTGT-TT
*
1614382 TTTTTGTTTTTGTTT
1 TTTTTATTTTTGTTT
1614397 TTTTT-TTTTT-TTT
1 TTTTTATTTTTGTTT
1614410 TTTTT
1 TTTTT
1614415 TTGGCCGAAG
Statistics
Matches: 71, Mismatches: 5, Indels: 11
0.82 0.06 0.13
Matches are distributed among these distances:
13 8 0.11
14 6 0.08
15 23 0.32
16 29 0.41
17 5 0.07
ACGTcount: A:0.06, C:0.00, G:0.07, T:0.86
Consensus pattern (15 bp):
TTTTTATTTTTGTTT
Found at i:1614372 original size:41 final size:38
Alignment explanation
Indices: 1614319--1614416 Score: 128
Period size: 41 Copynumber: 2.5 Consensus size: 38
1614309 CAACTCAACA
*
1614319 TTTTTATTTTTGATTTTTTTTATTTTTGTTTTTATTTTT
1 TTTTTTTTTTTGATTTTTTTT-TTTTTGTTTTTATTTTT
*
1614358 TTTTGATTTTTTTGATTTTTTGTTTTTTTGTTTTTGTTTTT
1 TTTT--TTTTTTTGATTTTTT-TTTTTTTGTTTTTATTTTT
1614399 TTTTTTTTTTT--TTTTTTT
1 TTTTTTTTTTTGATTTTTTT
1614417 GGCCGAAGCT
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
36 1 0.02
37 6 0.11
39 11 0.20
41 34 0.63
42 2 0.04
ACGTcount: A:0.06, C:0.00, G:0.07, T:0.87
Consensus pattern (38 bp):
TTTTTTTTTTTGATTTTTTTTTTTTTGTTTTTATTTTT
Found at i:1614469 original size:41 final size:42
Alignment explanation
Indices: 1614424--1615244 Score: 1087
Period size: 41 Copynumber: 20.0 Consensus size: 42
1614414 TTTGGCCGAA
* * *
1614424 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
*
1614465 GCTCCTCTAAACAGAGGCA--ACGGAC-TTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-GACTTTTGAAAAGTAAATT
* * *
1614505 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
*
1614547 GCTCCTCTCAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
* * *
1614588 GCTCCTCTAAACAGAGGCACCTCGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
* *
1614630 GCTCCTCTCAACAGAGGTACCACGAC-TTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1614671 GCTCCTCTAAACAGAGGCA--ACGGAAC-TTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTTGAAAAGTAAATT
*
1614711 GCTCCTCTAAACAGAGGCA--ACGAAC--TTGAAAGGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAATT
*
1614750 GCTCCTCTCAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1614791 GCTCCTCT-AACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1614832 GCTCCTCTAAACAGAGGCA--ACGAAC-TTTGAAAAGTAGTAAATTT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTTG-AAA--AGTAAA-TT
1614876 GCTTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GC-TCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1614919 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
*
1614960 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1615002 GCCTCCTCTAAACAGAGGCACCAACGACTTTTTGAAAAAGTAAATT
1 G-CTCCTCTAAACAGAGGCACC-ACGAC-TTTTG-AAAAGTAAATT
1615048 GCTCCTCTAAACAGAGGCA-CACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
* *
1615089 GCTCCT-TAAACAGA-GCA-CACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1615128 GCTCCTCTAAACAGAGGCA-CACGAC-TTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
* *
1615168 GCTCCTCTAAA-AGAGGCAACA-AAC-TTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
*
1615207 GCT-CTCTAAATAGAGGCA--ACGAAC-TTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTTGAAAAGTAAAT
1615245 ACTCCTAGAC
Statistics
Matches: 716, Mismatches: 30, Indels: 70
0.88 0.04 0.09
Matches are distributed among these distances:
37 1 0.00
38 10 0.01
39 118 0.16
40 131 0.18
41 212 0.30
42 130 0.18
43 35 0.05
44 16 0.02
45 39 0.05
46 17 0.02
47 7 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
Found at i:1614594 original size:83 final size:81
Alignment explanation
Indices: 1614424--1615244 Score: 1091
Period size: 83 Copynumber: 10.0 Consensus size: 81
1614414 TTTGGCCGAA
* * * *
1614424 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCA-ACG
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACAC-
*
1614487 GACTTTGGAAAGTAAATT
64 GACTTTGAAAAGTAAATT
* *
1614505 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCA-CAC
1614570 GACTTTGAAAAGTAAATT
64 GACTTTGAAAAGTAAATT
* * *
1614588 GCTCCTCTAAACAGAGGCACCTCGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCA-CAC
1614653 GACTTTGAAAAGTAAATT
64 GACTTTGAAAAGTAAATT
*
1614671 GCTCCTCTAAACAGAGGCA--ACGGAACTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCA-AC
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACAC
*
1614732 GAAC-TTGAAAGGTAAATT
64 G-ACTTTGAAAAGTAAATT
* *
1614750 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT-AACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA-CACG
1614814 ACTTTTGAAAAGTAAATT
65 AC-TTTGAAAAGTAAATT
1614832 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAGTAAATTTGCTTCCTCTAAACAGAGGC
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAA--A-TAAA-TTGC-TCCTCTAAACAGAGGC
1614895 ACCACGACTTTTGAAAAGTAAATT
60 A-CACGAC-TTTGAAAAGTAAATT
*
1614919 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA-CACG
1614984 ACTTTGGAAAAGTAAATT
65 ACTTT-GAAAAGTAAATT
1615002 GCCTCCTCTAAACAGAGGCACCAACGACTTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCA
1 G-CTCCTCTAAACAGAGGCACC-ACGAC--TTTGAAAAA-TAAATTGCTCCTCTAAACAGAGGCA
1615067 CACGACTTTTGAAAAGTAAATT
61 CACGAC-TTTGAAAAGTAAATT
1615089 GCTCCT-TAAACAGA-GCA-CACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACACG
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCACACG
1615151 ACTTTGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
* * * *
1615168 GCTCCTCTAAA-AGAGGCAACA-AACTTTGAAAAGTAAATTGCT-CTCTAAATAGAGGCA-ACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACACG-
1615229 ACTTTGAAAAGTAAAT
65 ACTTTGAAAAGTAAAT
1615245 ACTCCTAGAC
Statistics
Matches: 681, Mismatches: 24, Indels: 73
0.88 0.03 0.09
Matches are distributed among these distances:
77 3 0.00
78 30 0.04
79 88 0.13
80 75 0.11
81 73 0.11
82 68 0.10
83 159 0.23
84 33 0.05
85 21 0.03
86 11 0.02
87 79 0.12
88 38 0.06
89 3 0.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACACGA
CTTTGAAAAGTAAATT
Found at i:1616362 original size:1 final size:1
Alignment explanation
Indices: 1616356--1616382 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
1616346 CCTGGATCTC
1616356 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1616383 ATCAAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1616451 original size:11 final size:11
Alignment explanation
Indices: 1616437--1616468 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1616427 CATTTTCTCA
1616437 TTTTTTTTTCC
1 TTTTTTTTTCC
*
1616448 TTTTTTTTTTC
1 TTTTTTTTTCC
1616459 TTTTTTTTTC
1 TTTTTTTTTC
1616469 ATCTTCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTCC
Found at i:1616473 original size:13 final size:12
Alignment explanation
Indices: 1616429--1616489 Score: 72
Period size: 13 Copynumber: 5.0 Consensus size: 12
1616419 CTTTTTTTCA
1616429 TTTTCTCATTTTT
1 TTTTCTC-TTTTT
1616442 TTTTC-CTTTTT
1 TTTTCTCTTTTT
1616453 TTTT-TCTTTTT
1 TTTTCTCTTTTT
*
1616464 TTTTCATCTTCTT
1 TTTTC-TCTTTTT
1616477 TTTTCTCATTTTT
1 TTTTCTC-TTTTT
1616490 CATCTATTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
11 19 0.45
12 3 0.07
13 20 0.48
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTCTTTTT
Found at i:1616478 original size:23 final size:22
Alignment explanation
Indices: 1616437--1616482 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1616427 CATTTTCTCA
* *
1616437 TTTTTTTTTCCTTTTTTTTTTC
1 TTTTTTTTTCATTTCTTTTTTC
1616459 TTTTTTTTTCATCTTCTTTTTTC
1 TTTTTTTTTCAT-TTCTTTTTTC
1616482 T
1 T
1616483 CATTTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTTTTTCATTTCTTTTTTC
Found at i:1619831 original size:15 final size:14
Alignment explanation
Indices: 1619810--1619851 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
1619800 AAACATGACT
1619810 AAAAAAAAAAAATA
1 AAAAAAAAAAAATA
*
1619824 ATAAAAAAAAAATA
1 AAAAAAAAAAAATA
1619838 AAAAATAAAAAAAT
1 AAAAA-AAAAAAAT
1619852 TACACATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAAAAAAAAATA
Found at i:1619833 original size:18 final size:18
Alignment explanation
Indices: 1619810--1619850 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1619800 AAACATGACT
*
1619810 AAAAAAAAA-AAATAATA
1 AAAAAAAAATAAAAAATA
1619827 AAAAAAAAATAAAAAATA
1 AAAAAAAAATAAAAAATA
1619845 AAAAAA
1 AAAAAA
1619851 TTACACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAAAAAATAAAAAATA
Found at i:1619840 original size:21 final size:19
Alignment explanation
Indices: 1619810--1619850 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
1619800 AAACATGACT
1619810 AAAAAAAAAAAATAATAAAA
1 AAAAAAAAAAAATAA-AAAA
1619830 AAAAAATAAAAAATAAAAAA
1 AAAAAA-AAAAAATAAAAAA
1619850 A
1 A
1619851 TTACACATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (19 bp):
AAAAAAAAAAAATAAAAAA
Found at i:1620509 original size:155 final size:154
Alignment explanation
Indices: 1620246--1620693 Score: 593
Period size: 155 Copynumber: 2.9 Consensus size: 154
1620236 TAGTTGTTGG
* *
1620246 AAATTGTTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
* *
1620311 TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCATCGTCGGATTATTTAAAGAAAATCAA
66 TATGCAAGAAAAACTACTG-TTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAAAAAATCAA
*
1620376 GATCAACCAATTAATTAATTATC-GA
130 GATCAACCAAGTAA-TAATTATCTGA
1620401 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
* * * *
1620466 TATGCAAGAAAAACTACTG-TGACTTGCCAGAGGCTGCCGTCGTCGG-TGGA-ATAAAAAAAAAC
66 TATGCAAGAAAAACTACTGTTCACTTG-CAGAGGCT-CCGTCGTCGGAT-TATTTAAAAAAAATC
*
1620528 AA-ATCAGCCAAGTAATAATTATCTGA
128 AAGATCAACCAAGTAATAATTATCTGA
* *
1620554 AAATTATTCTCAATGGACTCTAATACTTTTTAGCAG-AAATTGGGGGAGGAAATTCCCTCACCTC
1 AAATTATTCTCAATTGACTCTAATAC-TTTTAGCAGAAAATT----GAGAAAATTCCCTCACCTC
* * *
1620618 AGGAGTATGCAAGAAAAAACTACTGTTTACTTGTAGAGGCTCCCGTCGTCGGATTAATTAAAAAA
61 AGGAGTATGCAAG-AAAAACTACTGTTCACTTGCAGAGGCT-CCGTCGTCGGATT-ATT-TAAAA
1620683 AAAATCAAGAT
122 AAAATCAAGAT
1620694 GCAAAATCAA
Statistics
Matches: 258, Mismatches: 19, Indels: 25
0.85 0.06 0.08
Matches are distributed among these distances:
152 8 0.03
153 49 0.19
154 29 0.11
155 92 0.36
157 31 0.12
158 28 0.11
159 8 0.03
161 11 0.04
162 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (154 bp):
AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
TATGCAAGAAAAACTACTGTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAAAAAATCAAG
ATCAACCAAGTAATAATTATCTGA
Found at i:1620708 original size:1 final size:1
Alignment explanation
Indices: 1620702--1620730 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
1620692 ATGCAAAATC
1620702 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1620731 CCTGGGAGCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1621823 original size:40 final size:41
Alignment explanation
Indices: 1621722--1621823 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 41
1621712 AAAAAAAAAA
* *
1621722 AATAATAATAATAATAAATATATAACTATATACATATAAATCT
1 AATAATAATAA-AATAAATAAATAAATATATACATATAAA-CT
*
1621765 AAT-CTAATAAAA-AAATAAATAAATATATACATA-ATAA-T
1 AATAATAATAAAATAAATAAATAAATATATACATATA-AACT
*
1621803 AATAATAATAAAATACATAAA
1 AATAATAATAAAATAAATAAA
1621824 ATACAAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
38 4 0.08
39 9 0.18
40 27 0.53
41 2 0.04
42 6 0.12
43 3 0.06
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (41 bp):
AATAATAATAAAATAAATAAATAAATATATACATATAAACT
Found at i:1625911 original size:44 final size:44
Alignment explanation
Indices: 1625862--1625949 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
1625852 CTCATGGTAT
*
1625862 AACCAATTTCCACGAAAT-TTCCTTTTTAAGGCGGTCCACAAAGA
1 AACCAATTTCCACGAAATCTTCCTTTTT-ACGCGGTCCACAAAGA
* *
1625906 AACCAATTTTCACGAAATCTTCCTTTTTTCGCGGTCCACAAAGA
1 AACCAATTTCCACGAAATCTTCCTTTTTACGCGGTCCACAAAGA
1625950 TATGACTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 31 0.77
45 9 0.22
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (44 bp):
AACCAATTTCCACGAAATCTTCCTTTTTACGCGGTCCACAAAGA
Found at i:1627599 original size:14 final size:14
Alignment explanation
Indices: 1627580--1627607 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1627570 AAATGGGTCA
1627580 CTGATCATGAAGGG
1 CTGATCATGAAGGG
1627594 CTGATCATGAAGGG
1 CTGATCATGAAGGG
1627608 TCCAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.21
Consensus pattern (14 bp):
CTGATCATGAAGGG
Found at i:1628293 original size:88 final size:87
Alignment explanation
Indices: 1628112--1628292 Score: 310
Period size: 88 Copynumber: 2.1 Consensus size: 87
1628102 TAAATAAGGC
*
1628112 TGAGAGAATTTACATAGGTATGATATATGGTGTACATGGTTATATATTTATTTGAGTTGAGAATA
1 TGAGAGAATTTACATAGGTATGATATATGGTGTACATAGTTATATATTTATTTGAGTTGAGAATA
1628177 CTTTATAGAACTAGAGGAGAGGT
66 CTTTATAGAACTAGAGGAGA-GT
* * *
1628200 TGAGAGAATTTACATAGGTATGGTGTATGGTGTACATAGTTATGTATTTATTTGAGTTGAGAATA
1 TGAGAGAATTTACATAGGTATGATATATGGTGTACATAGTTATATATTTATTTGAGTTGAGAATA
1628265 CTTTATAGAACTAGAGGAGA-T
66 CTTTATAGAACTAGAGGAGAGT
1628286 TGAGAGA
1 TGAGAGA
1628293 GCCTATGGGT
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
86 8 0.09
88 81 0.91
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (87 bp):
TGAGAGAATTTACATAGGTATGATATATGGTGTACATAGTTATATATTTATTTGAGTTGAGAATA
CTTTATAGAACTAGAGGAGAGT
Found at i:1629874 original size:6 final size:6
Alignment explanation
Indices: 1629855--1629896 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
1629845 TATACTTTGA
* *
1629855 TATATT TATTTT TATATT TAT-TT GAT-TT TATATT TATATT TA
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TA
1629897 CAAATAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 8 0.26
6 23 0.74
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (6 bp):
TATATT
Found at i:1629921 original size:18 final size:20
Alignment explanation
Indices: 1629887--1629925 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
1629877 TGATTTTATA
1629887 TTTATATTTACAAATAATAT
1 TTTATATTTACAAATAATAT
1629907 TTTATA-TTA-AAATAATAT
1 TTTATATTTACAAATAATAT
1629925 T
1 T
1629926 AAATAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 3 0.16
20 6 0.32
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTATATTTACAAATAATAT
Found at i:1629946 original size:28 final size:30
Alignment explanation
Indices: 1629898--1629955 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 30
1629888 TTATATTTAC
1629898 AAATAATATTTTATATT-AAAA-TAATATT
1 AAATAATATTTTATATTAAAAATTAATATT
1629926 AAATAATA-TTTATATTAAAAAATTAATATT
1 AAATAATATTTTATATT-AAAAATTAATATT
1629956 TATTAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 8 0.30
28 8 0.30
29 4 0.15
30 7 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
AAATAATATTTTATATTAAAAATTAATATT
Found at i:1630502 original size:23 final size:23
Alignment explanation
Indices: 1630442--1630507 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
1630432 ATCATTAATT
*
1630442 AATATTAAT-TTAATACTGATAAA
1 AATATTAATATTAATA-TAATAAA
* ** *
1630465 AAAATTAA-AAAAATAAAATAAA
1 AATATTAATATTAATATAATAAA
1630487 AATATTAATATTAATATAATA
1 AATATTAATATTAATATAATA
1630508 GGAAAAAAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
22 12 0.38
23 20 0.62
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AATATTAATATTAATATAATAAA
Found at i:1635478 original size:27 final size:27
Alignment explanation
Indices: 1635421--1635478 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
1635411 ATCAAATGGC
* * *
1635421 AATAACTTGATTTTCATTTTGGTACTT
1 AATAACTTGATTTTCATCTTGCTACTA
*
1635448 AATAACTTGATTTTTATACTTGCTA-TA
1 AATAACTTGATTTTCAT-CTTGCTACTA
1635475 AATA
1 AATA
1635479 GTAGGTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.48
Consensus pattern (27 bp):
AATAACTTGATTTTCATCTTGCTACTA
Found at i:1642125 original size:29 final size:30
Alignment explanation
Indices: 1642070--1642130 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
1642060 TATAGTACTC
*
1642070 TTTCCTGTAAAATTTATTATTTAATCCCCT
1 TTTCCTGTAAAATTTATTATCTAATCCCCT
* * *
1642100 TTTCC-GTTAAATTTATTATCTGATCCTCT
1 TTTCCTGTAAAATTTATTATCTAATCCCCT
1642129 TT
1 TT
1642131 CCTAAAACGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.23, C:0.20, G:0.05, T:0.52
Consensus pattern (30 bp):
TTTCCTGTAAAATTTATTATCTAATCCCCT
Found at i:1646769 original size:48 final size:48
Alignment explanation
Indices: 1646698--1646793 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
1646688 AGGTCCTTGA
* *
1646698 ACACATAAAAGATGCTGTGAGACTTCGATTAGGGGGACTAAGTCAGAT
1 ACACATAAAAGATGCTGTGAGACTTCGATTAGAGGGACCAAGTCAGAT
* *
1646746 ACACATAAAAGATGTTGTGAGACTTCGATTATAGGGACCAAGTCAGAT
1 ACACATAAAAGATGCTGTGAGACTTCGATTAGAGGGACCAAGTCAGAT
1646794 TGCTGCCAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (48 bp):
ACACATAAAAGATGCTGTGAGACTTCGATTAGAGGGACCAAGTCAGAT
Found at i:1649849 original size:21 final size:21
Alignment explanation
Indices: 1649823--1649863 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1649813 AAAAAAAAAA
*
1649823 TCAATTTATTTTAC-ATTTTTC
1 TCAATTT-TTTCACTATTTTTC
1649844 TCAATTTTTTCACTATTTTT
1 TCAATTTTTTCACTATTTTT
1649864 TTTGTTCCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (21 bp):
TCAATTTTTTCACTATTTTTC
Found at i:1651317 original size:37 final size:37
Alignment explanation
Indices: 1651267--1651343 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
1651257 GTTTCCAACA
1651267 CAATGAATTGATATACTGACTCAAATGAAACTAAATC
1 CAATGAATTGATATACTGACTCAAATGAAACTAAATC
1651304 CAATGAATTGATATACTGACTCAAATGAAACTAAATC
1 CAATGAATTGATATACTGACTCAAATGAAACTAAATC
1651341 CAA
1 CAA
1651344 CTTAGAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.26
Consensus pattern (37 bp):
CAATGAATTGATATACTGACTCAAATGAAACTAAATC
Found at i:1657052 original size:154 final size:154
Alignment explanation
Indices: 1656772--1657081 Score: 514
Period size: 154 Copynumber: 2.0 Consensus size: 154
1656762 TATAATCAAA
* **
1656772 ATAAAAATGGCTCTTCCTCTTATTTTCTTAAAATTATAGCAACTTGAATTAGGATAACCGACGCG
1 ATAAAAAAGGCTCTTCCTCTTATTTTCTTAAAATTATAGCAACCCGAATTAGGATAACCGACGCG
** *
1656837 GAATGCAGTTACAGCAATAGTATACTCTAATAAAAAATATTACGAACTTAAGATACATATGTAGA
66 GAACACAGTTACAGCAATAGTATACTATAATAAAAAATATTACGAACTTAAGATACATATGTAGA
1656902 GCTCACCTCACTCTTACTTAACAT
131 GCTCACCTCACTCTTACTTAACAT
* *
1656926 ATAAAAAAGGTTCTTCCTCTTATTTTCTTAAAATTATAGCAACCCGAATTAGGATAATCGACGCG
1 ATAAAAAAGGCTCTTCCTCTTATTTTCTTAAAATTATAGCAACCCGAATTAGGATAACCGACGCG
* *
1656991 GAACATAGTTACCA-CAATAGTATACTATAATAAAAAATATTATGAACTTAAGATACATATGTAG
66 GAACACAGTTA-CAGCAATAGTATACTATAATAAAAAATATTACGAACTTAAGATACATATGTAG
1657055 AGCTCACCTCACTCTTACTTAACAT
130 AGCTCACCTCACTCTTACTTAACAT
1657080 AT
1 AT
1657082 TAACAATAGA
Statistics
Matches: 145, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
154 143 0.99
155 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (154 bp):
ATAAAAAAGGCTCTTCCTCTTATTTTCTTAAAATTATAGCAACCCGAATTAGGATAACCGACGCG
GAACACAGTTACAGCAATAGTATACTATAATAAAAAATATTACGAACTTAAGATACATATGTAGA
GCTCACCTCACTCTTACTTAACAT
Found at i:1660688 original size:48 final size:48
Alignment explanation
Indices: 1660614--1660709 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
1660604 AGGTCCTTGA
* * *
1660614 ACACATAAAAGATGCTGTGAGGCTTCGATTACAGGGACTAAGTGAGAT
1 ACACATAAAAGATGCTGTGAGACTTCGATTACAGGGACCAAGTCAGAT
* *
1660662 ACACATAAAAGATGTTGTGAGACTTCGATTATAGGGACCAAGTCAGAT
1 ACACATAAAAGATGCTGTGAGACTTCGATTACAGGGACCAAGTCAGAT
1660710 TGCTGCGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (48 bp):
ACACATAAAAGATGCTGTGAGACTTCGATTACAGGGACCAAGTCAGAT
Found at i:1662749 original size:23 final size:21
Alignment explanation
Indices: 1662718--1662777 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 21
1662708 TTTAATTATT
* *
1662718 ATTTTAAAAAATAATGATTAAA
1 ATTTTAAAAAATAATCAAT-AA
1662740 ATTTTTAAAAAGAATAATCAATAA
1 A-TTTT-AAAA-AATAATCAATAA
1662764 ATTTTAAAAAATAA
1 ATTTTAAAAAATAA
1662778 AATAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 5 0.15
22 5 0.15
23 8 0.24
24 7 0.21
25 8 0.24
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (21 bp):
ATTTTAAAAAATAATCAATAA
Found at i:1662787 original size:22 final size:22
Alignment explanation
Indices: 1662718--1662787 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
1662708 TTTAATTATT
* *
1662718 ATTTTAAAAAATAATGATTAAAA
1 ATTTTAAAAAATAA-AATAAAAA
* * *
1662741 TTTTTAAAAAGA-ATAATCAATAA
1 ATTTTAAAAA-ATAAAAT-AAAAA
1662764 ATTTTAAAAAATAAAATAAAAA
1 ATTTTAAAAAATAAAATAAAAA
1662786 AT
1 AT
1662788 AAAAAGGGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
22 9 0.25
23 26 0.72
24 1 0.03
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (22 bp):
ATTTTAAAAAATAAAATAAAAA
Found at i:1663705 original size:61 final size:61
Alignment explanation
Indices: 1663639--1663877 Score: 221
Period size: 60 Copynumber: 4.0 Consensus size: 61
1663629 TCAATGATCT
*
1663639 CTTTAAAAT-GAAATTTTGAAAAAAAAATATTTTTGAAGGAAAGTTGAATA-TATCAATTTCC
1 CTTTAAAATAAAAATTTT-AAAAAAAAATATTTTTGAAGGAAAGTTGAA-AGTATCAATTTCC
* * * * *
1663700 TTTTAACATAAAAATTTT-TAAAAAAATATTTTTGAGGGAAAGTTGAAAGTGTCAATTTCC
1 CTTTAAAATAAAAATTTTAAAAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATTTCC
* * * * * *
1663760 CTTGAAAATAAAAATTTT--CAAAAAATACTTTTGAGGGAAAGTTAAAAGTACCAATTTCC
1 CTTTAAAATAAAAATTTTAAAAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATTTCC
* * * * *
1663819 CTTGAAAATAAAAA-TGT---CAAAAAT-GTTTT-AAGGAAAAGTTGAAAGTATCAATTTTC
1 CTTTAAAATAAAAATTTTAAAAAAAAATATTTTTGAAGG-AAAGTTGAAAGTATCAATTTCC
1663875 CTT
1 CTT
1663878 GTATAAAAGC
Statistics
Matches: 154, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
55 3 0.02
56 26 0.17
57 6 0.04
58 2 0.01
59 51 0.33
60 52 0.34
61 7 0.05
62 7 0.05
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (61 bp):
CTTTAAAATAAAAATTTTAAAAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATTTCC
Found at i:1663740 original size:60 final size:60
Alignment explanation
Indices: 1663659--1663878 Score: 254
Period size: 59 Copynumber: 3.8 Consensus size: 60
1663649 AAATTTTGAA
* * * *
1663659 AAAAAAATATTTTTGAAGGAAAGTTGAATA-TATCAATTTCCTTTTAACATAAAAATTTTT
1 AAAAAAATATTTTTGAGGGAAAGTTGAA-AGTATCAATTTCCCTTGAAAATAAAAATTTTT
*
1663719 AAAAAAATATTTTTGAGGGAAAGTTGAAAGTGTCAATTTCCCTTGAAAATAAAAA-TTTT
1 AAAAAAATATTTTTGAGGGAAAGTTGAAAGTATCAATTTCCCTTGAAAATAAAAATTTTT
* * * * *
1663778 CAAAAAATACTTTTGAGGGAAAGTTAAAAGTACCAATTTCCCTTGAAAATAAAAA--TGT
1 AAAAAAATATTTTTGAGGGAAAGTTGAAAGTATCAATTTCCCTTGAAAATAAAAATTTTT
* * * * *
1663836 -CAAAAAT-GTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAAAAATATTTTTGAGGGAAAGTTGAAAGTATCAATTTCCCTTG
1663879 TATAAAAGCA
Statistics
Matches: 141, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
56 30 0.21
57 6 0.04
58 2 0.01
59 55 0.39
60 48 0.34
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (60 bp):
AAAAAAATATTTTTGAGGGAAAGTTGAAAGTATCAATTTCCCTTGAAAATAAAAATTTTT
Found at i:1664743 original size:15 final size:14
Alignment explanation
Indices: 1664703--1664748 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 14
1664693 TTTTTTTTAT
1664703 AAAAATCAATAAAA
1 AAAAATCAATAAAA
1664717 TACAAAAT-AATAAAA
1 -A-AAAATCAATAAAA
1664732 AAAATATCAATAAAA
1 AAAA-ATCAATAAAA
1664747 AA
1 AA
1664749 TATTAAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 3 0.11
14 3 0.11
15 17 0.61
16 5 0.18
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAATCAATAAAA
Found at i:1672235 original size:24 final size:25
Alignment explanation
Indices: 1672202--1672255 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
1672192 AAAATATTGT
* *
1672202 AAATAGAAATTAACAAAAAATGAAA
1 AAATAGAAATAAACAAAAAATAAAA
* *
1672227 AAATA-AAATAAATAAATAATAAAA
1 AAATAGAAATAAACAAAAAATAAAA
1672251 AAATA
1 AAATA
1672256 TATATTTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.19
Consensus pattern (25 bp):
AAATAGAAATAAACAAAAAATAAAA
Found at i:1678167 original size:26 final size:26
Alignment explanation
Indices: 1678126--1678176 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
1678116 GCTGTGAGAC
1678126 TTCGATTACAGAGACTAAGTCAGATA
1 TTCGATTACAGAGACTAAGTCAGATA
* *
1678152 TTCGATTATAGGGACTAAGTCAGAT
1 TTCGATTACAGAGACTAAGTCAGAT
1678177 TGCTGCGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (26 bp):
TTCGATTACAGAGACTAAGTCAGATA
Found at i:1692545 original size:36 final size:36
Alignment explanation
Indices: 1692469--1692545 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
1692459 TATGATAAAG
** * * *
1692469 ATGATATTAATTATGAATTATTTTTATGTGACGAAT
1 ATGATATTAATTATGAATTATTTCAATGTAACAAAA
*
1692505 ATGATATTAATTATG-ATTCATTTCAATTTAACAAAA
1 ATGATATTAATTATGAATT-ATTTCAATGTAACAAAA
1692541 ATGAT
1 ATGAT
1692546 TTTGACAAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 3 0.09
36 31 0.91
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.44
Consensus pattern (36 bp):
ATGATATTAATTATGAATTATTTCAATGTAACAAAA
Found at i:1696890 original size:15 final size:14
Alignment explanation
Indices: 1696849--1696891 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
1696839 AATGAATAAT
*
1696849 AAACAAATTATAACC
1 AAACAAATT-TAAAC
*
1696864 AAATAAATTTAAAC
1 AAACAAATTTAAAC
1696878 AAACAAATCTTAAA
1 AAACAAAT-TTAAA
1696892 TGAATATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACAAATTTAAAC
Found at i:1697641 original size:13 final size:14
Alignment explanation
Indices: 1697612--1697645 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
1697602 ATAATAAAAT
1697612 TAAATTAAATTTACA
1 TAAATTAAA-TTACA
1697627 TAAATTAAA-TACA
1 TAAATTAAATTACA
1697640 TAAATT
1 TAAATT
1697646 TTGAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
15 9 0.47
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAATTAAATTACA
Found at i:1697891 original size:22 final size:23
Alignment explanation
Indices: 1697843--1697891 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1697833 ATTTGAAATA
* *
1697843 ATTTAAATATGTTTTGATTTGAG
1 ATTTAAACACGTTTTGATTTGAG
*
1697866 ATTTAAACACGTTTT-ATTTGAT
1 ATTTAAACACGTTTTGATTTGAG
1697888 ATTT
1 ATTT
1697892 TCAATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.53
Consensus pattern (23 bp):
ATTTAAACACGTTTTGATTTGAG
Found at i:1701775 original size:13 final size:14
Alignment explanation
Indices: 1701757--1701785 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1701747 TGATAAGAAT
1701757 TTTTAAAAT-TTTA
1 TTTTAAAATATTTA
1701770 TTTTAAAATATTTA
1 TTTTAAAATATTTA
1701784 TT
1 TT
1701786 CTTTGGCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTAAAATATTTA
Found at i:1707251 original size:137 final size:137
Alignment explanation
Indices: 1707025--1707272 Score: 358
Period size: 137 Copynumber: 1.8 Consensus size: 137
1707015 AATTTCATGC
* * *
1707025 CTTTCTTTGTACTGTTTAGATTTGATGAAGAACCCATTGGACCACATGGGGACCAATGTAGCACC
1 CTTTCTTTGTACAGTTTAGATTTGATGAAGAACCCATTGGACCACATGAGGAACAATGTAGCACC
**
1707090 AGAATTTCAAATCACACTGCAAAAGTTCTTTGTCCCTTTGTTTCACTTTATTCTAATGACAACAA
66 AGAATTTCAAATCACACTGCAAAAGTTCGCTGTCCCTTTGTTTCACTTTATTCTAATGACAACAA
1707155 CTGATGA
131 CTGATGA
* *
1707162 CTTTCTTTGTACAGTTTAG-TTCTGATGAAGAACCCAGTT-GACCGCATGAGGAACAATGTGGCA
1 CTTTCTTTGTACAGTTTAGATT-TGATGAAGAACCCA-TTGGACCACATGAGGAACAATGTAGCA
* * *
1707225 TCA-AATTTTCAAATCACACTGCAAAAGTTCGCTGTCTCTTTTTTTCAC
64 CCAGAA-TTTCAAATCACACTGCAAAAGTTCGCTGTCCCTTTGTTTCAC
1707273 GCCATAAATT
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
136 4 0.04
137 92 0.94
138 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (137 bp):
CTTTCTTTGTACAGTTTAGATTTGATGAAGAACCCATTGGACCACATGAGGAACAATGTAGCACC
AGAATTTCAAATCACACTGCAAAAGTTCGCTGTCCCTTTGTTTCACTTTATTCTAATGACAACAA
CTGATGA
Found at i:1707974 original size:59 final size:58
Alignment explanation
Indices: 1707901--1708118 Score: 291
Period size: 59 Copynumber: 3.7 Consensus size: 58
1707891 TTTTTTTAGA
1707901 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT-GATTTTCAAG
* *
1707960 GAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATTT-A-TTTCTAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAATTTGATTTTC-AAG
*
1708019 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTT-AAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAA-TTTGATTTTCAAG
* *
1708079 GAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTT
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1708119 TTTTTAAATT
Statistics
Matches: 142, Mismatches: 7, Indels: 21
0.84 0.04 0.12
Matches are distributed among these distances:
56 1 0.01
58 10 0.07
59 75 0.53
60 38 0.27
61 14 0.10
62 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTGATTTTCAAG
Found at i:1708088 original size:60 final size:60
Alignment explanation
Indices: 1707901--1708121 Score: 315
Period size: 60 Copynumber: 3.7 Consensus size: 60
1707891 TTTTTTTAGA
* *
1707901 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTCGATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTT-AAG
* *** *
1707960 GAAAATTGATACTTTCAACTTTTCCTCAAAAA-CCCTTTTTTTGAAAATTT-ATTTCTAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTT-TAAG
1708019 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTAAG
* *
1708079 GAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTT
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTT
1708122 TTAAATTTAT
Statistics
Matches: 145, Mismatches: 12, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
59 69 0.48
60 72 0.50
61 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (60 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTAAG
Found at i:1708120 original size:119 final size:118
Alignment explanation
Indices: 1707901--1708120 Score: 379
Period size: 119 Copynumber: 1.9 Consensus size: 118
1707891 TTTTTTTAGA
1707901 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAAT
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAAT
1707966 TGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAG
66 TGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAG
* *
1708019 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTT-AAGGAAA
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTCGATTTTCAAGGAAA
* *
1708083 ATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTT
64 ATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTT
1708121 TTTAAATTTA
Statistics
Matches: 96, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
118 34 0.35
119 43 0.45
120 19 0.20
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (118 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAG
Found at i:1708136 original size:20 final size:20
Alignment explanation
Indices: 1708113--1708155 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1708103 CTCAAAAATC
1708113 TTTTTTTTTTT--AAATTTA
1 TTTTTTTTTTTGAAAATTTA
1708131 TTTTTTTTTTTGAAAATTTA
1 TTTTTTTTTTTGAAAATTTA
1708151 TTTTT
1 TTTTT
1708156 AAGAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 11 0.48
20 12 0.52
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTTTTTTTGAAAATTTA
Found at i:1708152 original size:140 final size:138
Alignment explanation
Indices: 1707995--1708260 Score: 399
Period size: 140 Copynumber: 1.9 Consensus size: 138
1707985 TCAAAAACCC
* **
1707995 TTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 TTTTTTTGAAAATTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATA---AGTT
* * *
1708060 TTGAAA-TTTTGATTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTT
63 TGGAAACTTTTGATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTT
1708124 AAATTTATTTT
128 AAATTTATTTT
*
1708135 TTTTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATAAGTTTGG
1 TTTTTTTGAAAATTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATAAGTTTGG
**
1708200 AAAGCTTTTTTTTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
66 AAA-C-TTTTGATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
1708261 GAAATTTTAT
Statistics
Matches: 114, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
137 7 0.06
140 107 0.94
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.50
Consensus pattern (138 bp):
TTTTTTTGAAAATTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATAAGTTTGG
AAACTTTTGATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTTAAA
TTTATTTT
Found at i:1709947 original size:18 final size:17
Alignment explanation
Indices: 1709926--1709965 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
1709916 TCTCCTTTTC
*
1709926 CTATTCGGATTCCTCCT
1 CTATTCAGATTCCTCCT
*
1709943 ACTATTCAGATTTCTCCT
1 -CTATTCAGATTCCTCCT
1709961 CTATT
1 CTATT
1709966 TTTTTTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (17 bp):
CTATTCAGATTCCTCCT
Found at i:1711021 original size:14 final size:13
Alignment explanation
Indices: 1711002--1711084 Score: 69
Period size: 14 Copynumber: 6.0 Consensus size: 13
1710992 TCAACTCAAC
1711002 ATTTTTATTTTTTG
1 ATTTTT-TTTTTTG
*
1711016 ATTTTTTTTTTTAAA
1 ATTTTTTTTTTT--G
1711031 ATTTTTGTTTTTTG
1 ATTTTT-TTTTTTG
*
1711045 TTTTTTGTTTTTTG
1 ATTTTT-TTTTTTG
*
1711059 -TTTTTTTTTGTTT
1 ATTTTTTTTT-TTG
*
1711072 TTTTTTTTTTTTG
1 ATTTTTTTTTTTG
1711085 CCGAAGTTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
12 4 0.07
13 15 0.25
14 28 0.47
15 6 0.10
16 6 0.10
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.83
Consensus pattern (13 bp):
ATTTTTTTTTTTG
Found at i:1711036 original size:1 final size:1
Alignment explanation
Indices: 1711032--1711083 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
1711022 TTTTTTAAAA
* * * * *
1711032 TTTTTGTTTTTTGTTTTTTGTTTTTTGTTTTTTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1711084 GCCGAAGTTC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:1711042 original size:7 final size:7
Alignment explanation
Indices: 1711032--1711084 Score: 76
Period size: 7 Copynumber: 7.9 Consensus size: 7
1711022 TTTTTTAAAA
1711032 TTTTTGT
1 TTTTTGT
1711039 TTTTTGT
1 TTTTTGT
1711046 TTTTTGT
1 TTTTTGT
1711053 TTTTTGT
1 TTTTTGT
1711060 TTTTT-T
1 TTTTTGT
1711066 TTGTTT-T
1 TT-TTTGT
1711073 TTTTT-T
1 TTTTTGT
1711079 TTTTTG
1 TTTTTG
1711085 CCGAAGTTCC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.27
7 32 0.73
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (7 bp):
TTTTTGT
Found at i:1711151 original size:42 final size:42
Alignment explanation
Indices: 1711092--1711636 Score: 878
Period size: 42 Copynumber: 13.2 Consensus size: 42
1711082 TTGCCGAAGT
* *
1711092 TCCTCTAAACAGAGGCACCGCGACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
*
1711134 TCCTCTCAACAGAGGCACCACGACTTT-GAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
1711175 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
*
1711216 TCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
*
1711258 TCCTCTAAACAGAGGCACCACGACTTTGGAAAGGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
1711300 TCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
* * * *
1711341 TCCTCTCAACAGAGGTACCACGACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
*
1711383 TCCTCTAAACAGAGGCACCACGACTTTGGAAAGGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
1711425 TCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
* * * *
1711466 TCCTCTCAACAGAGGTACCACGACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
1711508 TCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
*
1711549 TCCTCTAAACAGAGGTACCACGACTTTGGAAAA--AAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
1711589 TCCTCTAAACAGAGGCA--ACGACTTT-GAAAA-TAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
1711627 TCCTCTAAAC
1 TCCTCTAAAC
1711637 CGGATCCTAA
Statistics
Matches: 470, Mismatches: 28, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
37 5 0.01
38 25 0.05
40 23 0.05
41 192 0.41
42 225 0.48
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (42 bp):
TCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGC
Found at i:1711248 original size:83 final size:83
Alignment explanation
Indices: 1711092--1711636 Score: 870
Period size: 83 Copynumber: 6.6 Consensus size: 83
1711082 TTGCCGAAGT
* * *
1711092 TCCTCTAAACAGAGGCACCGCGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACGA
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1711157 CTTT-GAAAAGTAAATTGC
65 CTTTGGAAAAGTAAATTGC
*
1711175 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGAC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
1711240 TTTGGAAAAGTAAATTGC
66 TTTGGAAAAGTAAATTGC
*
1711258 TCCTCTAAACAGAGGCACCACGACTTTGGAAAGGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 TCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1711323 CTTTGG-AAAGTAAATTGC
65 CTTTGGAAAAGTAAATTGC
* * *
1711341 TCCTCTCAACAGAGGTACCACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
1 TCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
*
1711406 CTTTGGAAAGGTAAATTGC
65 CTTTGGAAAAGTAAATTGC
* * *
1711425 TCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGTACCACGAC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
* *
1711490 TTTGAAAAAATAAATTGC
66 TTTGGAAAAGTAAATTGC
* *
1711508 TCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGAC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
1711573 TTTGGAAAA--AAATTGC
66 TTTGGAAAAGTAAATTGC
1711589 TCCTCTAAACAGAGGCA--ACGACTTTGAAAA-TAAATTGCTCCTCTAAAC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAAC
1711637 CGGATCCTAA
Statistics
Matches: 437, Mismatches: 21, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
78 18 0.04
79 12 0.03
81 24 0.05
82 41 0.09
83 264 0.60
84 78 0.18
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (83 bp):
TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
TTTGGAAAAGTAAATTGC
Found at i:1711351 original size:125 final size:125
Alignment explanation
Indices: 1711092--1711636 Score: 924
Period size: 125 Copynumber: 4.4 Consensus size: 125
1711082 TTGCCGAAGT
* * *
1711092 TCCTCTAAACAGAGGCACCGCGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACGA
1 TCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
* *
1711157 CTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
66 CTTTGGAAAGGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGC
*
1711216 TCCTCTCAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 TCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
1711281 CTTTGGAAAGGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGC
66 CTTTGGAAAGGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGC
* *
1711341 TCCTCTCAACAGAGGTACCACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
1 TCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
1711406 CTTTGGAAAGGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGC
66 CTTTGGAAAGGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGC
* *
1711466 TCCTCTCAACAGAGGTACCACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
1 TCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
* *
1711531 CTTTGGAAA-GTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAA-AAAATTGC
66 CTTTGGAAAGGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGC
*
1711589 TCCTCTAAACAGAGGCA--ACGACTTT-G-AAAATAAATTGCTCCTCTAAAC
1 TCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAAC
1711637 CGGATCCTAA
Statistics
Matches: 406, Mismatches: 14, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
119 22 0.05
121 8 0.02
123 22 0.05
124 105 0.26
125 249 0.61
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (125 bp):
TCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
CTTTGGAAAGGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGC
Found at i:1711914 original size:39 final size:39
Alignment explanation
Indices: 1711871--1711962 Score: 93
Period size: 39 Copynumber: 2.4 Consensus size: 39
1711861 TGAAAAAATA
* *
1711871 AATTG-TCCTTTAAACAGAG-GCAACAACTTTTGAAAAGTT
1 AATTGCTCCTCTAAA-AGAGAGC-ACAACTTTGGAAAAGTT
* *
1711910 AATTGCTCCTCTAAAAGAGAGCCCAACTTTGGAAAA-TA
1 AATTGCTCCTCTAAAAGAGAGCACAACTTTGGAAAAGTT
1711948 AATTGCATCCT-TAAA
1 AATTGC-TCCTCTAAA
1711963 GGGCAATTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
38 11 0.24
39 25 0.54
40 10 0.22
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.28
Consensus pattern (39 bp):
AATTGCTCCTCTAAAAGAGAGCACAACTTTGGAAAAGTT
Found at i:1713208 original size:16 final size:15
Alignment explanation
Indices: 1713187--1713272 Score: 61
Period size: 16 Copynumber: 5.5 Consensus size: 15
1713177 CCCTTTCAGG
*
1713187 TTTTCAATTTGTTCTT
1 TTTTC-ATTTTTTCTT
1713203 TTTTCATTTTTTCATT
1 TTTTCATTTTTTC-TT
*
1713219 TTCTCATTTTTTCCTTTT
1 TTTTCATTTTTT-C--TT
1713237 TTTTC-TTTTTT-TT
1 TTTTCATTTTTTCTT
*
1713250 TTTTC-TCTTTTCTCAT
1 TTTTCAT-TTTT-TCTT
1713266 TTTTCAT
1 TTTTCAT
1713273 CCATGTTGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
13 8 0.14
14 4 0.07
15 8 0.14
16 24 0.41
17 8 0.14
18 6 0.10
ACGTcount: A:0.08, C:0.16, G:0.01, T:0.74
Consensus pattern (15 bp):
TTTTCATTTTTTCTT
Found at i:1713214 original size:8 final size:8
Alignment explanation
Indices: 1713187--1713238 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
1713177 CCCTTTCAGG
1713187 TTTTCAATT
1 TTTTC-ATT
*
1713196 TGTTC-TT
1 TTTTCATT
1713203 TTTTCATT
1 TTTTCATT
1713211 TTTTCATT
1 TTTTCATT
*
1713219 TTCTCATT
1 TTTTCATT
*
1713227 TTTTCCTT
1 TTTTCATT
1713235 TTTT
1 TTTT
1713239 TTCTTTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
7 6 0.16
8 27 0.73
9 4 0.11
ACGTcount: A:0.10, C:0.15, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTTCATT
Found at i:1713242 original size:20 final size:22
Alignment explanation
Indices: 1713217--1713269 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 22
1713207 CATTTTTTCA
1713217 TTTTCTCATTTTTTCCTTT-T-
1 TTTTCTCATTTTTTCCTTTCTC
**
1713237 TTTTCT--TTTTTTTTTTTCTC
1 TTTTCTCATTTTTTCCTTTCTC
1713257 TTTTCTCATTTTT
1 TTTTCTCATTTTT
1713270 CATCCATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 9 0.33
19 1 0.04
20 12 0.44
22 5 0.19
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTCTCATTTTTTCCTTTCTC
Found at i:1713245 original size:8 final size:8
Alignment explanation
Indices: 1713201--1713260 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
1713191 CAATTTGTTC
*
1713201 TTTTTTCA
1 TTTTTTCT
*
1713209 TTTTTTCA
1 TTTTTTCT
*
1713217 TTTTCTCAT
1 TTTTTTC-T
*
1713226 TTTTTCCTT
1 TTTTTTC-T
1713235 TTTTTTCT
1 TTTTTTCT
1713243 TTTTTT-T
1 TTTTTTCT
*
1713250 TTTTCTCT
1 TTTTTTCT
1713258 TTT
1 TTT
1713261 CTCATTTTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
7 6 0.14
8 25 0.58
9 12 0.28
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTCT
Found at i:1717233 original size:118 final size:118
Alignment explanation
Indices: 1717055--1717285 Score: 392
Period size: 118 Copynumber: 2.0 Consensus size: 118
1717045 TTTTTTTAGA
1717055 GAAAATTGATACTTTCAACTTTTCCCCAAAAAAATTTTTTGGAAATTTCGATTTTCAAGGAAAAT
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAAAATTTTTTGGAAATTTCGATTTTCAAGGAAAAT
1717120 TGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTCTAAG
66 TGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTCTAAG
* * *
1717173 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTT-AAGGAAAA
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAA-AATTTTTTGGAAATTTCGATTTTCAAGGAAAA
* **
1717237 TTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTAAATTTATTT
65 TTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTT
1717286 TTTTTTTTTG
Statistics
Matches: 106, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
118 86 0.81
119 20 0.19
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (118 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAAAATTTTTTGGAAATTTCGATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTCTAAG
Found at i:1717272 original size:59 final size:59
Alignment explanation
Indices: 1717055--1717273 Score: 325
Period size: 59 Copynumber: 3.7 Consensus size: 59
1717045 TTTTTTTAGA
* * *
1717055 GAAAATTGATACTTTCAACTTTTCCCCAAAAA-AATTTTTTGGAAATTTCGATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTT-AAG
* ** *
1717114 GAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTT-ATTTCTAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTT-TAAG
1717173 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTAAG
* *
1717232 GAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTT
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
1717274 TTAAATTTAT
Statistics
Matches: 145, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
59 128 0.88
60 17 0.12
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.44
Consensus pattern (59 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTAAG
Found at i:1717290 original size:21 final size:21
Alignment explanation
Indices: 1717266--1717308 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1717256 CTCAAAAATC
1717266 TTTTTTTTTT--AAATTTATT
1 TTTTTTTTTTGAAAATTTATT
1717285 TTTTTTTTTTGAAAATTTATT
1 TTTTTTTTTTGAAAATTTATT
1717306 TTT
1 TTT
1717309 AAGAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.45
21 12 0.55
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTTTTTTGAAAATTTATT
Found at i:1717305 original size:139 final size:138
Alignment explanation
Indices: 1717149--1717413 Score: 406
Period size: 139 Copynumber: 1.9 Consensus size: 138
1717139 TCAAAAATCC
* **
1717149 TTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 TTTTTTTGAAAATTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATA--AGTTT
* * *
1717214 TGAAA-TTTTGATTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTAA
64 GGAAACTTTTGATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTAA
1717278 ATTTATTTTT
129 ATTTATTTTT
*
1717288 TTTTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATAAGTTTGG
1 TTTTTTTGAAAATTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATAAGTTTGG
**
1717353 AAAGCTTTTTTTTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
66 AAA-C-TTTTGATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
1717414 GAAATTTTAT
Statistics
Matches: 114, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
137 7 0.06
139 56 0.49
140 51 0.45
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (138 bp):
TTTTTTTGAAAATTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATAAGTTTGG
AAACTTTTGATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTAAAT
TTATTTTT
Found at i:1717367 original size:80 final size:78
Alignment explanation
Indices: 1717207--1717368 Score: 186
Period size: 80 Copynumber: 2.1 Consensus size: 78
1717197 CCCAAAAATA
* * * ***
1717207 TTTTTTTTGAAATTTTGATTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTT
1 TTTTTTTTGAAAATTTGATTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAA--TTAAGT
**
1717272 TTTTAAATTTATTTT
64 TTGGAAATTTATTTT
1717287 TTTTTTTTGAAAATTT-ATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAA-TAAGTT
1 TTTTTTTTGAAAATTTGA-TTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATTAAGTT
**
1717350 TGGAAAGCT-TTTT
65 TGGAAATTTATTTT
1717363 TTTTTT
1 TTTTTT
1717369 AAGAAAAATT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
76 10 0.14
77 8 0.11
79 1 0.01
80 52 0.73
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.53
Consensus pattern (78 bp):
TTTTTTTTGAAAATTTGATTTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATTAAGTTT
GGAAATTTATTTT
Found at i:1719956 original size:26 final size:25
Alignment explanation
Indices: 1719927--1719988 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
1719917 TCTAATCTAA
*
1719927 ATAAAAATAAATACACAAAGATATAC
1 ATAAAAATAAATA-ACAAAGAAATAC
* * *
1719953 ATAATAAT-AATAATAATGAAATAC
1 ATAAAAATAAATAACAAAGAAATAC
1719977 ATAAAATATAAA
1 ATAAAA-ATAAA
1719989 AGAAGAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 14 0.48
25 6 0.21
26 9 0.31
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.24
Consensus pattern (25 bp):
ATAAAAATAAATAACAAAGAAATAC
Found at i:1725995 original size:15 final size:15
Alignment explanation
Indices: 1725975--1726005 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1725965 CATAAATCAC
*
1725975 CTTTTCCCCTCTTTT
1 CTTTTCACCTCTTTT
1725990 CTTTTCACCTCTTTT
1 CTTTTCACCTCTTTT
1726005 C
1 C
1726006 CCATTTTAAT
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:0.03, C:0.39, G:0.00, T:0.58
Consensus pattern (15 bp):
CTTTTCACCTCTTTT
Found at i:1729546 original size:15 final size:15
Alignment explanation
Indices: 1729519--1729554 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
1729509 TTAAATTATT
1729519 AAAATTAATAATTAA
1 AAAATTAATAATTAA
1729534 AAAATATAA-AATTAA
1 AAAAT-TAATAATTAA
1729549 AAAATT
1 AAAATT
1729555 TTACATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.05
15 16 0.80
16 3 0.15
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATTAATAATTAA
Found at i:1731400 original size:23 final size:24
Alignment explanation
Indices: 1731347--1731403 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
1731337 TTTTTAAAAA
*
1731347 ATAAAAATAAAAATGGGTTGAAAT
1 ATAAAAATAAAAATGGGTTCAAAT
* ** *
1731371 ATGAAAA-AAAAATGTTTTCAATT
1 ATAAAAATAAAAATGGGTTCAAAT
1731394 ATAAAAATAA
1 ATAAAAATAA
1731404 GGGATATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.60, C:0.02, G:0.11, T:0.28
Consensus pattern (24 bp):
ATAAAAATAAAAATGGGTTCAAAT
Found at i:1734615 original size:26 final size:25
Alignment explanation
Indices: 1734567--1734616 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1734557 TATAATTTAA
* * *
1734567 TAATTATTTAAATTTAATATTTTTT
1 TAATTAATTAAAATTAAAATTTTTT
1734592 TAATTAATTAAAATTAAAATTTTTT
1 TAATTAATTAAAATTAAAATTTTTT
1734617 ATTTTGATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TAATTAATTAAAATTAAAATTTTTT
Found at i:1735354 original size:21 final size:20
Alignment explanation
Indices: 1735328--1735395 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
1735318 CTTCGTACAA
1735328 TTAATATTATTAAATTAATAT
1 TTAATATTATTAAA-TAATAT
1735349 TTAATAGTTA--AAA-AATAT
1 TTAATA-TTATTAAATAATAT
**
1735367 AAAATATTATTATAATAATAT
1 TTAATATTATTA-AATAATAT
*
1735388 TCAATATT
1 TTAATATT
1735396 TAAAATATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
17 3 0.08
18 9 0.24
19 1 0.03
20 5 0.13
21 17 0.45
22 3 0.08
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (20 bp):
TTAATATTATTAAATAATAT
Found at i:1735442 original size:30 final size:31
Alignment explanation
Indices: 1735367--1735442 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
1735357 TAAAAAATAT
* **
1735367 AAAATATTATTATAA-TAATATTCAATATTT
1 AAAATATTATTAAAATTAATATTCAATATAG
* *
1735397 AAAATATTCTT-AAATTAATATTTAATA-AG
1 AAAATATTATTAAAATTAATATTCAATATAG
1735426 AAAATATTATTAAAATT
1 AAAATATTATTAAAATT
1735443 TTATAAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
29 12 0.32
30 26 0.68
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (31 bp):
AAAATATTATTAAAATTAATATTCAATATAG
Found at i:1735443 original size:24 final size:25
Alignment explanation
Indices: 1735410--1735459 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
1735400 ATATTCTTAA
* *
1735410 ATTAATATTTAATAAGAA-AATATT
1 ATTAAAATTTAATAAAAATAATATT
*
1735434 ATTAAAATTTTATAAAAATAATATT
1 ATTAAAATTTAATAAAAATAATATT
1735459 A
1 A
1735460 CATATTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTAAAATTTAATAAAAATAATATT
Found at i:1735465 original size:29 final size:29
Alignment explanation
Indices: 1735433--1735492 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
1735423 AAGAAAATAT
*
1735433 TATTAAAATTTTATAA-AAATAATATTACA
1 TATTAAAATATTA-AAGAAATAATATTACA
* *
1735462 TATTAAGATATTAAAGAAATAATATTTCA
1 TATTAAAATATTAAAGAAATAATATTACA
1735491 TA
1 TA
1735493 ACAGTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (29 bp):
TATTAAAATATTAAAGAAATAATATTACA
Found at i:1746261 original size:2 final size:2
Alignment explanation
Indices: 1746254--1746297 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
1746244 CAGACAATAG
*
1746254 AT AT AT AT AT AT A- AT AA AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1746294 AT AT
1 AT AT
1746298 TAAGAAAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1749536 original size:52 final size:52
Alignment explanation
Indices: 1749457--1749613 Score: 172
Period size: 52 Copynumber: 3.0 Consensus size: 52
1749447 TATAACCATA
* * * *
1749457 CAAACTTGCTTATTAATAATCCCTTTCCTTTTAGAATTCTTCTTCTACAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTCTTTTTCTACAAGT
* * **
1749509 CAAACTTGCCTATTAAGAATCTTTTTCCTCTTAGAATTCTTTTTCTGTAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTCTTTTTCTACAAGT
* ** * * *
1749561 TAAACTTATCTATTAAGAATCCTCTTTCTTTTTAAAATT-TTTTTTTACAAGT
1 CAAACTTGCCTATTAAGAAT-CTCTTTCCTTTTAGAATTCTTTTTCTACAAGT
1749613 C
1 C
1749614 TTCTTGTCCA
Statistics
Matches: 85, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
52 71 0.84
53 14 0.16
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.47
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTCTTTTTCTACAAGT
Found at i:1750417 original size:6 final size:7
Alignment explanation
Indices: 1750398--1750422 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1750388 CTCAACTACC
1750398 TATTTTT
1 TATTTTT
1750405 TATTTTT
1 TATTTTT
1750412 TATTTTT
1 TATTTTT
1750419 TATT
1 TATT
1750423 AATAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:1750641 original size:41 final size:41
Alignment explanation
Indices: 1750571--1750955 Score: 238
Period size: 42 Copynumber: 9.3 Consensus size: 41
1750561 TTCTTTTTTA
* * * **
1750571 AAAAATAAATAAGGCTCCTCTAAGCAGAGGTTCAATAACTTTG
1 AAAAAT-AA-AAGGCTTCTCCAAACAGAGGCACAATAACTTTG
* * * *
1750614 AAAAATAAAAGGCTTCTTCAAATAGAGGCACAACAACTTTA
1 AAAAATAAAAGGCTTCTCCAAACAGAGGCACAATAACTTTG
1750655 AAAAATAAAAGGC-TCTCCAAACAGAGGCACAATAACTTTG
1 AAAAATAAAAGGCTTCTCCAAACAGAGGCACAATAACTTTG
* * ** * *
1750695 -AAAATAAAAGGCTTTTCCAAACAAAGATACAACATCTTTG
1 AAAAATAAAAGGCTTCTCCAAACAGAGGCACAATAACTTTG
** * * * * * * *
1750735 AAAAAATAAAATACTCCTCTAAACAAAAGCACCACAACTTCG
1 -AAAAATAAAAGGCTTCTCCAAACAGAGGCACAATAACTTTG
* * * * * *
1750777 AAAAGTAAAATGCTCCTCTAAATAGAGGCACCATAAC-TTG
1 AAAAATAAAAGGCTTCTCCAAACAGAGGCACAATAACTTTG
* * * * * *
1750817 AAAAATAAAATGCTCCTCTAAACAGAGGTACCACAACTTTTG
1 AAAAATAAAAGGCTTCTCCAAACAGAGGCACAATAAC-TTTG
* * * * * ** *
1750859 AAAAATAAAATGCTCCTCTAAATAGAAGCATTACAACTTTTG
1 AAAAATAAAAGGCTTCTCCAAACAGAGGCACAATAAC-TTTG
* * * * * *
1750901 AAAAATAAAATGC-TCTTCTAAATAGAGGTACCACAACTTTG
1 AAAAATAAAAGGCTTC-TCCAAACAGAGGCACAATAACTTTG
1750942 AAAAATAAAAGGCT
1 AAAAATAAAAGGCT
1750956 CCTCAACAAT
Statistics
Matches: 283, Mismatches: 52, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
39 12 0.04
40 79 0.28
41 85 0.30
42 101 0.36
43 6 0.02
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (41 bp):
AAAAATAAAAGGCTTCTCCAAACAGAGGCACAATAACTTTG
Found at i:1750759 original size:42 final size:41
Alignment explanation
Indices: 1750646--1750959 Score: 244
Period size: 42 Copynumber: 7.7 Consensus size: 41
1750636 TAGAGGCACA
* * * * ** *
1750646 ACAACTTTAAAAAATAAAAGGCT-CTCCAAACAGAGGCACA
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAACAAAGATACC
* * ** * *
1750686 ATAACTTTG-AAAATAAAAGGCTTTTCCAAACAAAGATACA
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAACAAAGATACC
* * *
1750726 ACATCTTTGAAAAAATAAAATACTCCTCTAAACAAA-AGCACC
1 ACAACTTTG-AAAAATAAAATGCTCCTCTAAACAAAGA-TACC
* * * * **
1750768 ACAACTTCGAAAAGTAAAATGCTCCTCTAAATAGAGGCACC
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAACAAAGATACC
* * *
1750809 ATAAC-TTGAAAAATAAAATGCTCCTCTAAACAGAGGTACC
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAACAAAGATACC
* *
1750849 ACAACTTTTGAAAAATAAAATGCTCCTCTAAATAGAAGCAT--T
1 ACAAC-TTTGAAAAATAAAATGCTCCTCTAAACA-AAG-ATACC
* * * *
1750891 ACAACTTTTGAAAAATAAAATGCTCTTCTAAATAGAGGTACC
1 ACAAC-TTTGAAAAATAAAATGCTCCTCTAAACAAAGATACC
*
1750933 ACAACTTTGAAAAATAAAAGGCTCCTC
1 ACAACTTTGAAAAATAAAATGCTCCTC
1750960 AACAATCATG
Statistics
Matches: 225, Mismatches: 38, Indels: 21
0.79 0.13 0.07
Matches are distributed among these distances:
39 13 0.06
40 63 0.28
41 53 0.24
42 93 0.41
43 2 0.01
44 1 0.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (41 bp):
ACAACTTTGAAAAATAAAATGCTCCTCTAAACAAAGATACC
Found at i:1750814 original size:123 final size:124
Alignment explanation
Indices: 1750641--1750959 Score: 376
Period size: 123 Copynumber: 2.6 Consensus size: 124
1750631 TCAAATAGAG
* * * * *
1750641 GCACAACAACTTTAAAAAATAAAAGGCT-CTCCAAACAGAGGCACAATAACTTTG-AAAATAAAA
1 GCACAACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCACCATAACTTTGAAAAATAAAA
** *
1750704 GGCTTTTCCAAACAAAGATACAACATC-TTTGAAAAAATAAAATACTCCTCTAAACAAAA
66 GGCTCCTCCAAACAAAGATACAACAACTTTTG-AAAAATAAAATACTCCTCTAAACAAAA
* * *
1750763 GCACCACAACTTCGAAAAGTAAAATGCTCCTCTAAATAGAGGCACCATAAC-TTGAAAAATAAAA
1 GCACAACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCACCATAACTTTGAAAAATAAAA
* * * * * * * *
1750827 TGCTCCTCTAAACAGAGGTACCACAACTTTTGAAAAATAAAATGCTCCTCTAAATAGAA
66 GGCTCCTCCAAACAAAGATACAACAACTTTTGAAAAATAAAATACTCCTCTAAACAAAA
** * * *
1750886 GCATTACAACTTTTGAAAAATAAAATGCTCTTCTAAATAGAGGTACCACAACTTTGAAAAATAAA
1 GCACAACAAC-TTTGAAAAATAAAATGCTCCTCTAAATAGAGGCACCATAACTTTGAAAAATAAA
1750951 AGGCTCCTC
65 AGGCTCCTC
1750960 AACAATCATG
Statistics
Matches: 165, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
122 26 0.16
123 79 0.48
124 40 0.24
125 20 0.12
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (124 bp):
GCACAACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCACCATAACTTTGAAAAATAAAA
GGCTCCTCCAAACAAAGATACAACAACTTTTGAAAAATAAAATACTCCTCTAAACAAAA
Found at i:1751513 original size:21 final size:21
Alignment explanation
Indices: 1751489--1751606 Score: 60
Period size: 21 Copynumber: 5.1 Consensus size: 21
1751479 GGTTTCACAC
1751489 CTCAAAGATTCTCATTTGAAA
1 CTCAAAGATTCTCATTTGAAA
1751510 CTCAAAACTCAAAGATTCTCATTTGAAAA
1 CTC---A----AAGATTCTCATTTG-AAA
* * *
1751539 CATATTAAAAATTCTTATTT-AAGA
1 C---TCAAAGATTCTCATTTGAA-A
*
1751563 CT-AAATGATTCTCATTTGAGA
1 CTCAAA-GATTCTCATTTGAAA
*
1751584 CTCAAAGATTCTCATTTAAAA
1 CTCAAAGATTCTCATTTGAAA
1751605 CT
1 CT
1751607 TAATCCAAAG
Statistics
Matches: 74, Mismatches: 8, Indels: 30
0.66 0.07 0.27
Matches are distributed among these distances:
20 3 0.04
21 31 0.42
22 4 0.05
23 2 0.03
24 3 0.04
25 11 0.15
28 14 0.19
29 5 0.07
32 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.35
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:1752108 original size:79 final size:79
Alignment explanation
Indices: 1751977--1752317 Score: 405
Period size: 79 Copynumber: 4.3 Consensus size: 79
1751967 GCTGTCTTTT
* * * *
1751977 ATCACTTGATCACCATTCATAGGTTTCTCAACACTAGCTATTTTAGAATAAATTCTATCCATTGA
1 ATCACTTGATCACCACTCATAGGTTTCTCAACACTAGCCATTTCAAAATAAATTCTATCCATTGA
1752042 TCCACATTATCTTC
66 TCCACATTATCTTC
* * * * * *
1752056 ATCACATGATCACTACTCATGGGTTTCTTAGCACTAGCCATTTCAAAATAAATTTTATCCATTGA
1 ATCACTTGATCACCACTCATAGGTTTCTCAACACTAGCCATTTCAAAATAAATTCTATCCATTGA
1752121 TCCACATTATCTTC
66 TCCACATTATCTTC
* * * * * * *
1752135 ATCATTTGATCACCACTTACATGTTTCTCAACACTAGTCATTTCAAAATAAATTCTATCTACTGA
1 ATCACTTGATCACCACTCATAGGTTTCTCAACACTAGCCATTTCAAAATAAATTCTATCCATTGA
*
1752200 TCCACATTATCTTT
66 TCCACATTATCTTC
* * * * * ** *
1752214 ATTACATGATCACCACTCATATGTTTCTTAGCACTAATCATTTCAAAATAAATTTTATCCATTGA
1 ATCACTTGATCACCACTCATAGGTTTCTCAACACTAGCCATTTCAAAATAAATTCTATCCATTGA
*
1752279 TCCATC-TTATCTTT
66 TCCA-CATTATCTTC
**
1752293 ATCACTTGATCATAACTCATAGGTT
1 ATCACTTGATCACCACTCATAGGTT
1752318 ATGTCGATCT
Statistics
Matches: 221, Mismatches: 40, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
79 220 1.00
80 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (79 bp):
ATCACTTGATCACCACTCATAGGTTTCTCAACACTAGCCATTTCAAAATAAATTCTATCCATTGA
TCCACATTATCTTC
Found at i:1752270 original size:158 final size:157
Alignment explanation
Indices: 1751977--1752304 Score: 473
Period size: 158 Copynumber: 2.1 Consensus size: 157
1751967 GCTGTCTTTT
* * *
1751977 ATCACTTGATCACCATTCATAGGTTTCTCAACACTAGCTATTTTAGAATAAATTCTATCCATTGA
1 ATCACTTGATCACCATTCATA-GTTTCTCAACACTAGCTATTTCAAAATAAATTCTATCCACTGA
* * *
1752042 TCCACATTATCTTCATCACATGATCACTACTCATGGGTTTCTTAGCACTAGCCATTTCAAAATAA
65 TCCACATTATCTTCATCACATGATCACCACTCATAGGTTTCTTAGCACTAACCATTTCAAAATAA
1752107 ATTTTATCCATTGATCCA-CATTATCTTC
130 ATTTTATCCATTGATCCATC-TTATCTTC
* *
1752135 ATCATTTGATCACCACTTACAT-GTTTCTCAACACTAG-TCATTTCAAAATAAATTCTATCTACT
1 ATCACTTGATCACCA-TT-CATAGTTTCTCAACACTAGCT-ATTTCAAAATAAATTCTATCCACT
* * * *
1752198 GATCCACATTATCTTTATTACATGATCACCACTCATATGTTTCTTAGCACTAATCATTTCAAAAT
63 GATCCACATTATCTTCATCACATGATCACCACTCATAGGTTTCTTAGCACTAACCATTTCAAAAT
*
1752263 AAATTTTATCCATTGATCCATCTTATCTTT
128 AAATTTTATCCATTGATCCATCTTATCTTC
1752293 ATCACTTGATCA
1 ATCACTTGATCA
1752305 TAACTCATAG
Statistics
Matches: 152, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
157 1 0.01
158 145 0.95
159 3 0.02
160 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (157 bp):
ATCACTTGATCACCATTCATAGTTTCTCAACACTAGCTATTTCAAAATAAATTCTATCCACTGAT
CCACATTATCTTCATCACATGATCACCACTCATAGGTTTCTTAGCACTAACCATTTCAAAATAAA
TTTTATCCATTGATCCATCTTATCTTC
Found at i:1752752 original size:15 final size:16
Alignment explanation
Indices: 1752726--1752755 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1752716 CATTGGGACG
1752726 AATGATATATTCAAAC
1 AATGATATATTCAAAC
1752742 AATGA-ATATTCAAA
1 AATGATATATTCAAA
1752756 TAATTCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (16 bp):
AATGATATATTCAAAC
Found at i:1752983 original size:11 final size:11
Alignment explanation
Indices: 1752969--1753027 Score: 52
Period size: 11 Copynumber: 5.3 Consensus size: 11
1752959 TTTTCCCTCA
1752969 TTTTTATCTTT
1 TTTTTATCTTT
1752980 TTTTTATTCTTT
1 TTTTTA-TCTTT
*
1752992 CATTTTT-TATTT
1 --TTTTTATCTTT
1753004 TTTTT-TCATTT
1 TTTTTATC-TTT
1753015 TTTTTAT-TTT
1 TTTTTATCTTT
1753025 TTT
1 TTT
1753028 CATCTATCAG
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
10 12 0.29
11 14 0.34
12 10 0.24
14 5 0.12
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTATCTTT
Found at i:1752998 original size:18 final size:17
Alignment explanation
Indices: 1752977--1753030 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
1752967 CATTTTTATC
*
1752977 TTTTTTTTATTCTTTCA
1 TTTTTTTTTTTCTTTCA
*
1752994 TTTTTTATTTTTTTTTCA
1 TTTTTT-TTTTTCTTTCA
*
1753012 TTTTTTTTATTTTTTTCA
1 TTTTTTTT-TTTCTTTCA
1753030 T
1 T
1753031 CTATCAGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 8 0.24
18 25 0.76
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTTTTTTCTTTCA
Found at i:1753008 original size:9 final size:9
Alignment explanation
Indices: 1752994--1753027 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
1752984 TATTCTTTCA
1752994 TTTTTTATTT
1 TTTTTTA-TT
1753004 TTTTTTCATT
1 TTTTTT-ATT
1753014 TTTTTTATT
1 TTTTTTATT
1753023 TTTTT
1 TTTTT
1753028 CATCTATCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.35
10 14 0.61
11 1 0.04
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTATT
Found at i:1753427 original size:17 final size:17
Alignment explanation
Indices: 1753394--1753427 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1753384 CCTTTTTCTC
*
1753394 CTTTTTCTTTTGCTTTT
1 CTTTTTCTTTTGATTTT
*
1753411 CTTTTTCTTTTTATTTT
1 CTTTTTCTTTTGATTTT
1753428 TGAGACCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (17 bp):
CTTTTTCTTTTGATTTT
Found at i:1757129 original size:120 final size:120
Alignment explanation
Indices: 1756906--1757129 Score: 337
Period size: 120 Copynumber: 1.9 Consensus size: 120
1756896 AAATATATCT
*
1756906 AATTATTCCACCATTTAGGCCAAATTAGAATATTTTCTTTTTTTGAATTTCTAAAATTTTTCACC
1 AATTATTCCACCATTTAGGCCAAATTAGAATATTTTCTTTTTTTGAATTTCTAAAATTTTTCACA
*
1756971 ATTTGGGCCTATTTAGAAATTCTCTCTTTTTTTATTTTTTTTGGTTGGATTTCTA
66 ATTTGGGCCTATTTAGAAATTCTCTATTTTTTTATTTTTTTTGGTTGGATTTCTA
* * * *
1757026 AATTATT-CATCATTTGGGTCAATTTAGAAATATTTTCTTTTTTTGAAATTTCT-AAATTTTTCA
1 AATTATTCCACCATTTAGGCCAAATTAG-AATATTTTCTTTTTTTG-AATTTCTAAAATTTTTCA
* *
1757089 CAATTTGGGCCTATTTAGAAATTCTTTATTCTTTT-TTTTTT
64 CAATTTGGGCCTATTTAGAAATTCTCTATTTTTTTATTTTTT
1757130 GTTTTCGAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
119 22 0.23
120 65 0.69
121 7 0.07
ACGTcount: A:0.25, C:0.12, G:0.09, T:0.53
Consensus pattern (120 bp):
AATTATTCCACCATTTAGGCCAAATTAGAATATTTTCTTTTTTTGAATTTCTAAAATTTTTCACA
ATTTGGGCCTATTTAGAAATTCTCTATTTTTTTATTTTTTTTGGTTGGATTTCTA
Found at i:1758687 original size:472 final size:473
Alignment explanation
Indices: 1757788--1758733 Score: 1682
Period size: 472 Copynumber: 2.0 Consensus size: 473
1757778 CAATTTAACT
*
1757788 AACAATGTTGGCTAGAGTACCAAAGCATTTAACAGAATGAAAGTTTTGACATAAAAGTGAGAATT
1 AACAATGTTGGCTAGAGTACCAAAGCATTTAACAGAATAAAAGTTTTGACATAAAAGTGAGAATT
* * *
1757853 TTATTTCTTTAGGTACTAAACTGACAAAATATATATAGTACATAGGCCATTTTTATATTTAACCC
66 TTATTTCTTTAGATACTAAACTGACAAAAAATATATAGTACATAGGCAATTTTTATATTTAACCC
1757918 TTCCCAAAAACATTAACTTTATTTTCCTTTCTTTAATGGTTGTGGCATGATTTAGTGAGGAAGAA
131 TTCCCAAAAACATTAACTTTATTTTCCTTTCTTTAATGGTTGTGGCATGATTTAGTGAGG-AGAA
1757983 AGGAACTGAGAACGAGCATTGCCTATAGTTCAGCGATTGAGATCTTACCTTAATATTGGAAAAGG
195 AGGAACTGAGAACGAGCATTGCCTATAGTTCAGCGATTGAGATCTTACCTTAATATTGGAAAAGG
1758048 CATTTCATATAAGGTATTTTCTTTGTACCTTAGAAATAATGGCAATGACTAGGATATTTTTATCA
260 CATTTCATATAAGGTATTTTCTTTGTACCTTAGAAATAATGGCAATGACTAGGATATTTTTATCA
1758113 AGTGCCCTTATTGGACGAAAATATACCATAAAAAATGTACTTAATTCACTTATTATGCATACTTT
325 AGTGCCCTTATTGGACGAAAATATACCATAAAAAATGTACTTAATTCACTTATTATGCATACTTT
1758178 CCTTTCACTGATTGAAAACATTTTAAAAATTTTGCTTATGGCATATTGATATTGGCTATAAACAA
390 CCTTTCACTGATTGAAAACATTTTAAAAATTTTGCTTATGGCATATTGATATTGGCTAT-AACAA
1758243 AAAATCGAACAGATAACATA
454 AAAATCGAACAGATAACATA
* * ** *
1758263 AACAATGTTGGTCTAGAGTACCAAAGCATTTGACGGAATAAAAGTTTTGGTATAATAGTGAGAAT
1 AACAATGTTGG-CTAGAGTACCAAAGCATTTAACAGAATAAAAGTTTTGACATAAAAGTGAGAAT
* *
1758328 TTTATTTCTTTAGATACTAAATTGACAAAAAATATATAGTACATAGGCAATTTTTGTATTTAACC
65 TTTATTTCTTTAGATACTAAACTGACAAAAAATATATAGTACATAGGCAATTTTTATATTTAACC
1758393 CTTCCCAAAAACATTAACTTTATTTTCCTTTCTTTAATGGTTGTGGCATGATTTAGTGA-G-G-A
130 CTTCCCAAAAACATTAACTTTATTTTCCTTTCTTTAATGGTTGTGGCATGATTTAGTGAGGAGAA
1758455 AGGAACTGAGAACGAGCATTGCCTATAGTTCAGCGATTGAGATCTTACCTTAATATTGGAAAAGG
195 AGGAACTGAGAACGAGCATTGCCTATAGTTCAGCGATTGAGATCTTACCTTAATATTGGAAAAGG
*
1758520 CATTTCATATATGGTATTTTCTTTGTACCTTAGAAATAATGGCAATGACTAGGATATTTTTATCA
260 CATTTCATATAAGGTATTTTCTTTGTACCTTAGAAATAATGGCAATGACTAGGATATTTTTATCA
** *
1758585 AGTGCCCTTATTGGACGAAAATATGTCATAAAAAATGTACTTAATTCACTTATTATGCGTACTTT
325 AGTGCCCTTATTGGACGAAAATATACCATAAAAAATGTACTTAATTCACTTATTATGCATACTTT
* * *
1758650 CCTTTCACTGATTGAGAATATTTTAAAAATTTTGCTTATGGCATATTGATATTGGCTCTAACAAA
390 CCTTTCACTGATTGAAAACATTTTAAAAATTTTGCTTATGGCATATTGATATTGGCTATAACAAA
1758715 AAATCGAACAGATAACATA
455 AAATCGAACAGATAACATA
1758734 GAAACTGGTG
Statistics
Matches: 452, Mismatches: 18, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
471 25 0.06
472 248 0.55
473 1 0.00
475 12 0.03
476 166 0.37
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (473 bp):
AACAATGTTGGCTAGAGTACCAAAGCATTTAACAGAATAAAAGTTTTGACATAAAAGTGAGAATT
TTATTTCTTTAGATACTAAACTGACAAAAAATATATAGTACATAGGCAATTTTTATATTTAACCC
TTCCCAAAAACATTAACTTTATTTTCCTTTCTTTAATGGTTGTGGCATGATTTAGTGAGGAGAAA
GGAACTGAGAACGAGCATTGCCTATAGTTCAGCGATTGAGATCTTACCTTAATATTGGAAAAGGC
ATTTCATATAAGGTATTTTCTTTGTACCTTAGAAATAATGGCAATGACTAGGATATTTTTATCAA
GTGCCCTTATTGGACGAAAATATACCATAAAAAATGTACTTAATTCACTTATTATGCATACTTTC
CTTTCACTGATTGAAAACATTTTAAAAATTTTGCTTATGGCATATTGATATTGGCTATAACAAAA
AATCGAACAGATAACATA
Found at i:1760949 original size:48 final size:48
Alignment explanation
Indices: 1760875--1760969 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
1760865 CTTGTGCACT
* * *
1760875 CATGCACTATATCTATGTGAAACCTCTCAATTTTTTCTAGTCCACTTG
1 CATGCACTATACCTATGTGAAACCTCTCAATCTCTTCTAGTCCACTTG
* * *
1760923 CATGCACTATGCCTATGTGAACCCTCTCAATCTCTTCTATTCCACTT
1 CATGCACTATACCTATGTGAAACCTCTCAATCTCTTCTAGTCCACTT
1760970 AAATATATAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.23, C:0.29, G:0.09, T:0.38
Consensus pattern (48 bp):
CATGCACTATACCTATGTGAAACCTCTCAATCTCTTCTAGTCCACTTG
Found at i:1761837 original size:12 final size:11
Alignment explanation
Indices: 1761815--1761849 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1761805 ACTCATATGC
1761815 TAAAATAAAAG
1 TAAAATAAAAG
1761826 TAAAAGTAAAAG
1 TAAAA-TAAAAG
*
1761838 TAAAAAAAAAG
1 TAAAATAAAAG
1761849 T
1 T
1761850 TTGATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (11 bp):
TAAAATAAAAG
Found at i:1764294 original size:18 final size:18
Alignment explanation
Indices: 1764268--1764306 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1764258 AAAAATTGAG
1764268 AAAAATAAAATGTAATTT
1 AAAAATAAAATGTAATTT
* * *
1764286 AAAATTAAATTGTATTTT
1 AAAAATAAAATGTAATTT
1764304 AAA
1 AAA
1764307 CGAACTCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAAATAAAATGTAATTT
Found at i:1765102 original size:134 final size:135
Alignment explanation
Indices: 1764545--1766277 Score: 2526
Period size: 134 Copynumber: 13.0 Consensus size: 135
1764535 TATATTGAAG
* *
1764545 ATTGTAAGCTGGATGTTTAAACGTATGGAAGAAGGTGAGAAGAAATTTCATCCGAAAATACCAGT
1 ATTGTAAGTTGGATGTTT-AACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGT
* * * *
1764610 GCAAAC--CTCAGTAGGCTTCACTCTTTAATTTTGCTTTCAATTGTCGTGCATTTCTACTCATGT
65 GCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGT
1764673 CAAGTC
130 CAAGTC
* *
1764679 ATTGTAAGTTGAATGTTTAACGTATGGAAAAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
1 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
*
1764744 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACTCATGTC
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
1764809 AAGTC
131 AAGTC
* *
1764814 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGTGGAAATTTCATCCG--AATACCAGTA
1 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
** * * * *
1764877 CGTACCTATCATTGGGCTTCACTCTTTAATATTGCTATCACTTGTCGTGCATTTCTACTCATGTC
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
*
1764942 AAGAC
131 AAGTC
* *
1764947 ATTGTAAGTTGGATG-TCAACGTATGGAAGAAGGTGTGAGGAAATTTCATCCGAAAATACCAGTG
1 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
* * * *
1765011 CAAACTTGTCAGTGGGATTCACTCTTTAATATTGCTATCAATT-TCATACATTTATACTCATGTC
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
*
1765075 CAGTC
131 AAGTC
* * *
1765080 ATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCAGAAAATACCAATG
1 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
* * *
1765145 CAAACTTGTAAGTGGGCTTCACTCTTTAGTATTGCTATCAATTGTTGTGCATTTCTACTCA--T-
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
1765207 ---TC
131 AAGTC
*
1765209 ATTGTAAGTTGGATGTTTAACGTATGTAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
1 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
* * * * *
1765274 CATACCTATCATTGGGCTTCACTCTTTAATATTGCTATCAATTTTCGTGCATTTCTACTCATGTC
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
*
1765339 AAGAC
131 AAGTC
*
1765344 ATTGTAAGTTGGATG-TTAACGTATGGAAGAAGCTGTA-AGGAAATTTCATCCGAAAATACCAGT
1 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTG-AGAGGAAATTTCATCCGAAAATACCAGT
*
1765407 GCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACTCATGT
65 GCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGT
1765472 CAAGTC
130 CAAGTC
* * *
1765478 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGATGAGAGGAAATTTCATCCGAAAATATCAGTA
1 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
** * * * *
1765543 CGTACCTATCATTGGGCTTCACTCTTTAATATTGCTATCACTTGTCGTGCATTTCTACTCATGTC
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
*
1765608 AAGAC
131 AAGTC
* *
1765613 ATTGTAAGTTGGATG-TCAACGTATGGAAGAAGGTGTGAGGAAATTTCATCCGAAAATACCAGTG
1 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
* * *
1765677 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATT-TCATACATTTATACTCATGTC
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
*
1765741 CAGTC
131 AAGTC
* * *
1765746 ATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCAGAAAATACCAATG
1 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
* * * *
1765811 CAAACTTGTAAGCGGGCTTCACTCTTTAGTATTGCTATCAATTGTTGTGCATTTCTACTCA--T-
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
1765873 ---TC
131 AAGTC
*
1765875 ATTGTAAGTTGGATGTTTAACGTATGTAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
1 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
* * * * *
1765940 CATACCTATCATTGGGCATCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
*
1766005 AAGAC
131 AAGTC
* *
1766010 ATTGTAAGTTGGATG-TTAACGTATGGAAGAAGCTGTGAGGAAATTTCATCCGAAAATACCAGTG
1 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
* *
1766074 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATT-TCATACA-TTCATACTCATGT
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTC-TACTCATGT
*
1766137 CCAGTC
130 CAAGTC
* * *
1766143 ATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCAGAAAATACCAATG
1 ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
* * * *
1766208 CAAACTTGTAAGTGGGCTTCACTCTTTAGTATTGCTATCAATTGTTGTGCATTTCTACTCATTTC
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
1766273 AAGTC
131 AAGTC
1766278 TTCGTCAACT
Statistics
Matches: 1424, Mismatches: 148, Indels: 53
0.88 0.09 0.03
Matches are distributed among these distances:
129 231 0.16
131 2 0.00
132 37 0.03
133 240 0.17
134 606 0.43
135 305 0.21
136 3 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (135 bp):
ATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
AAGTC
Found at i:1765406 original size:397 final size:399
Alignment explanation
Indices: 1764545--1766277 Score: 2465
Period size: 397 Copynumber: 4.3 Consensus size: 399
1764535 TATATTGAAG
*
1764545 ATTGTAAGCTGGATGTTTAAACGTATGGAAGAAGGTGAGAAGAAATTTCATCCGAAAATACCAGT
1 ATTGTAAGCTGGATGTTT-AACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGT
* * * * *
1764610 GCAAAC--CTCAGTAGGCTTCACTCTTTAATTTTGCTTTCAATTGTCGTGCATTTCTACTCATGT
65 GCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACTCATGT
* *
1764673 CAAGTCATTGTAAGTTGAATGTTTAACGTATGGAAAAAGGTGAGAGGAAATTTCATCCGAAAATA
130 CAAGTCATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATA
* * *
1764738 CCAGTGCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACT
195 CCAGTGCAAACCTATCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACT
*
1764803 CATGTCAAGTCATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGTGGAAATTTCATCCG-
260 CATGT--A--CATTGTAAGTTGGATG-TTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGA
* ** * * * *
1764867 -AATACCAGTACGTACCTATCATTGGGCTTCACTCTTTAATATTGCTATCACTTGTCGTGCATTT
320 AAATACCAGTGCAAACCTATCAGTGGGCTTCACTCTTTAATATTGCTATCAATT-TCATACATTT
1764931 CTACTCATGTCAAGAC
384 CTACTCATGTCAAGAC
* * *
1764947 ATTGTAAGTTGGATG-TCAACGTATGGAAGAAGGTGTGAGGAAATTTCATCCGAAAATACCAGTG
1 ATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
* * *
1765011 CAAACTTGTCAGTGGGATTCACTCTTTAATATTGCTATCAATT-TCATACATTTATACTCATGTC
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACTCATGTC
* * *
1765075 CAGTCATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCAGAAAATAC
131 AAGTCATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATAC
* * * * * *
1765140 CAATGCAAACTTGTAAGTGGGCTTCACTCTTTAGTATTGCTATCAATTGTTGTGCATTTCTACTC
196 CAGTGCAAACCTATCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTC
*
1765205 AT-T-CATTGTAAGTTGGATGTTTAACGTATGTAAGAAGGTGAGAGGAAATTTCATCCGAAAATA
261 ATGTACATTGTAAGTTGGATG-TTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATA
* * * *
1765268 CCAGTGCATACCTATCATTGGGCTTCACTCTTTAATATTGCTATCAATTTTCGTGCATTTCTACT
325 CCAGTGCAAACCTATCAGTGGGCTTCACTCTTTAATATTGCTATCAA-TTTCATACATTTCTACT
1765333 CATGTCAAGAC
389 CATGTCAAGAC
* *
1765344 ATTGTAAGTTGGATG-TTAACGTATGGAAGAAGCTGTA-AGGAAATTTCATCCGAAAATACCAGT
1 ATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTG-AGAGGAAATTTCATCCGAAAATACCAGT
1765407 GCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACTCATGT
65 GCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACTCATGT
*
1765472 CAAGTCATTGTAAGTTGGATGTTTAACGTATGGAAGAAGATGAGAGGAAATTTCATCCGAAAATA
130 CAAGTCATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATA
* * ** * *
1765537 TCAGTACGTACCTATCATTGGGCTTCACTCTTTAATATTGCTATCACTTGTCGTGCATTTCTACT
195 CCAGTGCAAACCTATCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACT
* *
1765602 CATGTCAAGACATTGTAAGTTGGATGTCAACGTATGGAAGAAGGTGTGAGGAAATTTCATCCGAA
260 CATGT----ACATTGTAAGTTGGATGTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAA
* * *
1765667 AATACCAGTGCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTTCATACATTTAT
321 AATACCAGTGCAAACCTATCAGTGGGCTTCACTCTTTAATATTGCTATCAATTTCATACATTTCT
* *
1765732 ACTCATGTCCAGTC
386 ACTCATGTCAAGAC
* *
1765746 ATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCAGAAAATACCAATG
1 ATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
* * * * *
1765811 CAAACTTGTAAGCGGGCTTCACTCTTTAGTATTGCTATCAATTGTTGTGCATTTCTACTCA--T-
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACTCATGTC
*
1765873 ---TCATTGTAAGTTGGATGTTTAACGTATGTAAGAAGGTGAGAGGAAATTTCATCCGAAAATAC
131 AAGTCATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATAC
* * *
1765935 CAGTGCATACCTATCATTGGGCATCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTC
196 CAGTGCAAACCTATCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTC
* *
1766000 ATGTCAAGACATTGTAAGTTGGATGTTAACGTATGGAAGAAGCTGTGAGGAAATTTCATCCGAAA
261 ATGT----ACATTGTAAGTTGGATGTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAA
* *
1766065 ATACCAGTGCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTTCATACA-TTCAT
322 ATACCAGTGCAAACCTATCAGTGGGCTTCACTCTTTAATATTGCTATCAATTTCATACATTTC-T
* *
1766129 ACTCATGTCCAGTC
386 ACTCATGTCAAGAC
* *
1766143 ATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCAGAAAATACCAATG
1 ATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
* * * * *
1766208 CAAACTTGTAAGTGGGCTTCACTCTTTAGTATTGCTATCAATTGTTGTGCATTTCTACTCATTTC
66 CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACTCATGTC
1766273 AAGTC
131 AAGTC
1766278 TTCGTCAACT
Statistics
Matches: 1228, Mismatches: 81, Indels: 43
0.91 0.06 0.03
Matches are distributed among these distances:
395 52 0.04
396 2 0.00
397 558 0.45
398 137 0.11
399 2 0.00
400 51 0.04
401 142 0.12
402 83 0.07
403 185 0.15
404 16 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (399 bp):
ATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
CAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACTCATGTC
AAGTCATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATAC
CAGTGCAAACCTATCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTC
ATGTACATTGTAAGTTGGATGTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAAATAC
CAGTGCAAACCTATCAGTGGGCTTCACTCTTTAATATTGCTATCAATTTCATACATTTCTACTCA
TGTCAAGAC
Found at i:1765814 original size:666 final size:666
Alignment explanation
Indices: 1764545--1766275 Score: 3051
Period size: 666 Copynumber: 2.6 Consensus size: 666
1764535 TATATTGAAG
* * *
1764545 ATTGTAAGCTGGATGTTTAAACGTATGGAAGAAGGTGAGAAGAAATTTCATCCGAAAATACCAGT
1 ATTGTAAGTTGGATGTTT-AACGTATGTAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGT
* * * * *
1764610 GCAAACC--TCAGTAGGCTTCACTCTTTAATTTTGCTTTCAATTGTCGTGCATTTCTACTCATGT
65 GCATACCTATCATTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGT
* * * *
1764673 CAAGTCATTGTAAGTTGAATGTTTAACGTATGGAAAAAGGTG-AGAGGAAATTTCATCCGAAAAT
130 CAAGACATTGTAAGTTGGATG-TTAACGTATGGAAGAAGCTGTA-AGGAAATTTCATCCGAAAAT
1764737 ACCAGTGCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATAC
193 ACCAGTGCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATAC
*
1764802 TCATGTCAAGTCATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGTGGAAATTTCATCCG
258 TCATGTCAAGTCATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCG
1764867 --AATACCAGTACGTACCTATCATTGGGCTTCACTCTTTAATATTGCTATCACTTGTCGTGCATT
323 AAAATACCAGTACGTACCTATCATTGGGCTTCACTCTTTAATATTGCTATCACTTGTCGTGCATT
1764930 TCTACTCATGTCAAGACATTGTAAGTTGGATGTCAACGTATGGAAGAAGGTGTGAGGAAATTTCA
388 TCTACTCATGTCAAGACATTGTAAGTTGGATGTCAACGTATGGAAGAAGGTGTGAGGAAATTTCA
1764995 TCCGAAAATACCAGTGCAAACTTGTCAGTGGGATTCACTCTTTAATATTGCTATCAATTTCATAC
453 TCCGAAAATACCAGTGCAAACTTGTCAGTGGGATTCACTCTTTAATATTGCTATCAATTTCATAC
1765060 ATTTATACTCATGTCCAGTCATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAAT
518 ATTTATACTCATGTCCAGTCATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAAT
*
1765125 TTCATCAGAAAATACCAATGCAAACTTGTAAGTGGGCTTCACTCTTTAGTATTGCTATCAATTGT
583 TTCATCAGAAAATACCAATGCAAACTTGTAAGCGGGCTTCACTCTTTAGTATTGCTATCAATTGT
1765190 TGTGCATTTCTACTCATTC
648 TGTGCATTTCTACTCATTC
1765209 ATTGTAAGTTGGATGTTTAACGTATGTAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
1 ATTGTAAGTTGGATGTTTAACGTATGTAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
*
1765274 CATACCTATCATTGGGCTTCACTCTTTAATATTGCTATCAATTTTCGTGCATTTCTACTCATGTC
66 CATACCTATCATTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
1765339 AAGACATTGTAAGTTGGATGTTAACGTATGGAAGAAGCTGTAAGGAAATTTCATCCGAAAATACC
131 AAGACATTGTAAGTTGGATGTTAACGTATGGAAGAAGCTGTAAGGAAATTTCATCCGAAAATACC
1765404 AGTGCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACTCA
196 AGTGCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACTCA
*
1765469 TGTCAAGTCATTGTAAGTTGGATGTTTAACGTATGGAAGAAGATGAGAGGAAATTTCATCCGAAA
261 TGTCAAGTCATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAA
*
1765534 ATATCAGTACGTACCTATCATTGGGCTTCACTCTTTAATATTGCTATCACTTGTCGTGCATTTCT
326 ATACCAGTACGTACCTATCATTGGGCTTCACTCTTTAATATTGCTATCACTTGTCGTGCATTTCT
1765599 ACTCATGTCAAGACATTGTAAGTTGGATGTCAACGTATGGAAGAAGGTGTGAGGAAATTTCATCC
391 ACTCATGTCAAGACATTGTAAGTTGGATGTCAACGTATGGAAGAAGGTGTGAGGAAATTTCATCC
*
1765664 GAAAATACCAGTGCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTTCATACATT
456 GAAAATACCAGTGCAAACTTGTCAGTGGGATTCACTCTTTAATATTGCTATCAATTTCATACATT
1765729 TATACTCATGTCCAGTCATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTC
521 TATACTCATGTCCAGTCATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTC
1765794 ATCAGAAAATACCAATGCAAACTTGTAAGCGGGCTTCACTCTTTAGTATTGCTATCAATTGTTGT
586 ATCAGAAAATACCAATGCAAACTTGTAAGCGGGCTTCACTCTTTAGTATTGCTATCAATTGTTGT
1765859 GCATTTCTACTCATTC
651 GCATTTCTACTCATTC
1765875 ATTGTAAGTTGGATGTTTAACGTATGTAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
1 ATTGTAAGTTGGATGTTTAACGTATGTAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
*
1765940 CATACCTATCATTGGGCATCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
66 CATACCTATCATTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
*
1766005 AAGACATTGTAAGTTGGATGTTAACGTATGGAAGAAGCTGTGAGGAAATTTCATCCGAAAATACC
131 AAGACATTGTAAGTTGGATGTTAACGTATGGAAGAAGCTGTAAGGAAATTTCATCCGAAAATACC
* * *
1766070 AGTGCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATT-TCATACATTCATACTCA
196 AGTGCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACTCA
* * *
1766134 TGTCCAGTCATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCAGAAA
261 TGTCAAGTCATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAA
* * ** * * * * * * *
1766199 ATACCAATGCAAACTTGTAAGTGGGCTTCACTCTTTAGTATTGCTATCAATTGTTGTGCATTTCT
326 ATACCAGTACGTACCTATCATTGGGCTTCACTCTTTAATATTGCTATCACTTGTCGTGCATTTCT
*
1766264 ACTCATTTCAAG
391 ACTCATGTCAAG
1766276 TCTTCGTCAA
Statistics
Matches: 1021, Mismatches: 41, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
663 50 0.05
664 183 0.18
665 210 0.21
666 578 0.57
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (666 bp):
ATTGTAAGTTGGATGTTTAACGTATGTAAGAAGGTGAGAGGAAATTTCATCCGAAAATACCAGTG
CATACCTATCATTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTCTACTCATGTC
AAGACATTGTAAGTTGGATGTTAACGTATGGAAGAAGCTGTAAGGAAATTTCATCCGAAAATACC
AGTGCAAACTTGTCAGTGGGCTTCACTCTTTAATATTGCTATCAATTGTCGTGCATTTATACTCA
TGTCAAGTCATTGTAAGTTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTCATCCGAAA
ATACCAGTACGTACCTATCATTGGGCTTCACTCTTTAATATTGCTATCACTTGTCGTGCATTTCT
ACTCATGTCAAGACATTGTAAGTTGGATGTCAACGTATGGAAGAAGGTGTGAGGAAATTTCATCC
GAAAATACCAGTGCAAACTTGTCAGTGGGATTCACTCTTTAATATTGCTATCAATTTCATACATT
TATACTCATGTCCAGTCATTGTAAGCTGGATGTTTAACGTATGGAAGAAGGTGAGAGGAAATTTC
ATCAGAAAATACCAATGCAAACTTGTAAGCGGGCTTCACTCTTTAGTATTGCTATCAATTGTTGT
GCATTTCTACTCATTC
Found at i:1767345 original size:33 final size:35
Alignment explanation
Indices: 1767297--1767362 Score: 91
Period size: 33 Copynumber: 1.9 Consensus size: 35
1767287 TTTGAAATTT
* * *
1767297 TGTAAGTAATATTTTTATATAATA-AAAATTTATG
1 TGTAAGTAAAATTTTTAAATAAAAGAAAATTTATG
1767331 TGTAA-TAAAATTTTTAAATAAAAGAAAATTTA
1 TGTAAGTAAAATTTTTAAATAAAAGAAAATTTA
1767363 AGTTTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (35 bp):
TGTAAGTAAAATTTTTAAATAAAAGAAAATTTATG
Found at i:1774610 original size:15 final size:16
Alignment explanation
Indices: 1774581--1774610 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1774571 ACAACTTGAG
1774581 CTTTAGTCTCTTTTTT
1 CTTTAGTCTCTTTTTT
1774597 CTTTAGTC-CTTTTT
1 CTTTAGTCTCTTTTT
1774611 GGTGGGAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.07, C:0.20, G:0.07, T:0.67
Consensus pattern (16 bp):
CTTTAGTCTCTTTTTT
Found at i:1778398 original size:31 final size:31
Alignment explanation
Indices: 1778361--1778455 Score: 136
Period size: 31 Copynumber: 3.1 Consensus size: 31
1778351 GGCTCAGTTT
*
1778361 TCTCTTAATCAATATATCTGGATTCTGGCAA
1 TCTCTTAATCAATATATCTAGATTCTGGCAA
* * *
1778392 TTTCTTAATCAATATATCAAGATTCTTGCAA
1 TCTCTTAATCAATATATCTAGATTCTGGCAA
* *
1778423 TCTCTTAATCAATATATCTAGAATCTGGTAA
1 TCTCTTAATCAATATATCTAGATTCTGGCAA
1778454 TC
1 TC
1778456 ATGTCTCTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (31 bp):
TCTCTTAATCAATATATCTAGATTCTGGCAA
Found at i:1792562 original size:108 final size:108
Alignment explanation
Indices: 1792376--1792573 Score: 231
Period size: 108 Copynumber: 1.8 Consensus size: 108
1792366 AATCTCCAAT
* * * * *
1792376 TTTTTTTTGGATTATTCTAGGCCTTTTTTGCCAAAAAATACCTTAAATAATCTTCTAATAAAAAT
1 TTTTTTTGGGAATATTCAAGGCATTTTTGGCCAAAAAATACCTTAAATAATCTTCTAATAAAAAT
* *
1792441 TAAAAGGGATTATTTAAGGTATTTTTGGAATAATCTCATTCTA
66 TAAAAGGGATTATTGAAGGCATTTTTGGAATAATCTCATTCTA
* * * *
1792484 TTTTTTTGGGAATATTCAAGGCATTTTTGGCCAAAAATTGCCTTGAATATTCCTT-TACA-AAAA
1 TTTTTTTGGGAATATTCAAGGCATTTTTGGCCAAAAAATACCTTAAATAAT-CTTCTA-ATAAAA
**
1792547 ATTGATTAGGG-TTATTGAAGGCATTTT
64 ATT-AAAAGGGATTATTGAAGGCATTTT
1792574 CTAGCCAAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
108 65 0.88
109 9 0.12
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (108 bp):
TTTTTTTGGGAATATTCAAGGCATTTTTGGCCAAAAAATACCTTAAATAATCTTCTAATAAAAAT
TAAAAGGGATTATTGAAGGCATTTTTGGAATAATCTCATTCTA
Found at i:1796102 original size:20 final size:21
Alignment explanation
Indices: 1796062--1796118 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
1796052 TTTTACATGT
*
1796062 TATTAAATTATCTTGTGTTTTT-
1 TATT-AATTA-CTTTTGTTTTTG
1796084 TCA-TAATTACTTTTGTTTTTG
1 T-ATTAATTACTTTTGTTTTTG
1796105 TATTAATTACTTTT
1 TATTAATTACTTTT
1796119 TTCTATTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 11 0.35
21 17 0.55
22 2 0.06
23 1 0.03
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (21 bp):
TATTAATTACTTTTGTTTTTG
Found at i:1797650 original size:33 final size:33
Alignment explanation
Indices: 1797608--1797673 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
1797598 ACCCTCTAGC
1797608 ATGTAGGGGTGACTGCAAAGTTCAAATAAAGAT
1 ATGTAGGGGTGACTGCAAAGTTCAAATAAAGAT
1797641 ATGTAGGGGTGACTGCAAAGTTCAAATAAAGAT
1 ATGTAGGGGTGACTGCAAAGTTCAAATAAAGAT
1797674 GTATCAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.27, T:0.24
Consensus pattern (33 bp):
ATGTAGGGGTGACTGCAAAGTTCAAATAAAGAT
Found at i:1800554 original size:40 final size:42
Alignment explanation
Indices: 1800487--1800575 Score: 105
Period size: 40 Copynumber: 2.2 Consensus size: 42
1800477 GAAAAAAAGT
* *
1800487 CTTAAATGATTATCATTAAAGGCA-TTTTT-A-AAGAAAACGC
1 CTTAAATGATCAACATTAAAGGCATTTTTTAATAAG-AAACGC
*
1800527 CTTAAATGATCAACATGT-AAGGTATTTTTTAATAAGAAACGC
1 CTTAAATGATCAACAT-TAAAGGCATTTTTTAATAAGAAACGC
1800569 CTTAAAT
1 CTTAAAT
1800576 ATTGATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
40 19 0.45
41 6 0.14
42 14 0.33
43 3 0.07
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (42 bp):
CTTAAATGATCAACATTAAAGGCATTTTTTAATAAGAAACGC
Found at i:1800613 original size:42 final size:42
Alignment explanation
Indices: 1800567--1800649 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
1800557 AATAAGAAAC
*
1800567 GCCTTAAAT-ATTGATTATTTAAGGCATTTCTTCAACCCAAAT
1 GCCTTAAATGA-TCATTATTTAAGGCATTTCTTCAACCCAAAT
** *
1800609 GCCTTAAATGATCATTATTTAAGGTGTTTCTTTAACCCAAA
1 GCCTTAAATGATCATTATTTAAGGCATTTCTTCAACCCAAA
1800650 ATTTATTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (42 bp):
GCCTTAAATGATCATTATTTAAGGCATTTCTTCAACCCAAAT
Done.