Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 223 of 276
Found at i:74340301 original size:2 final size:2
Alignment explanation
Indices: 74340288--74340335 Score: 78
Period size: 2 Copynumber: 23.5 Consensus size: 2
74340278 TTCCTTATTC
74340288 CT CT CAT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT C-T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
74340331 TT CT C
1 CT CT C
74340336 ATTCAGAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:74356609 original size:21 final size:21
Alignment explanation
Indices: 74356585--74356625 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
74356575 TCCAATAAAG
74356585 AAAATCAAAAATAGGTGGAGC
1 AAAATCAAAAATAGGTGGAGC
*
74356606 AAAATCAAAAGTAGGTGGAG
1 AAAATCAAAAATAGGTGGAG
74356626 TATCAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.07, G:0.27, T:0.15
Consensus pattern (21 bp):
AAAATCAAAAATAGGTGGAGC
Found at i:74358801 original size:13 final size:14
Alignment explanation
Indices: 74358783--74358812 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
74358773 CTGTGTGTTC
74358783 TTTA-TTTTATTTT
1 TTTATTTTTATTTT
74358796 TTTATTTTTATTTT
1 TTTATTTTTATTTT
74358810 TTT
1 TTT
74358813 TCACAGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTATTTTTATTTT
Found at i:74359189 original size:13 final size:13
Alignment explanation
Indices: 74359171--74359198 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
74359161 TCTCCAAAAA
74359171 AATAAATAATAAT
1 AATAAATAATAAT
74359184 AATAAATAATAAT
1 AATAAATAATAAT
74359197 AA
1 AA
74359199 ACTAAAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:74361671 original size:20 final size:21
Alignment explanation
Indices: 74361628--74361671 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
74361618 AAACATAATA
*
74361628 ATAGTATTACAAAGTATATAC
1 ATAGTATTACAAAATATATAC
*
74361649 ATAGTATTA-AAAATATGTAC
1 ATAGTATTACAAAATATATAC
74361669 ATA
1 ATA
74361672 ATATAATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (21 bp):
ATAGTATTACAAAATATATAC
Found at i:74361675 original size:29 final size:28
Alignment explanation
Indices: 74361643--74361747 Score: 103
Period size: 29 Copynumber: 3.8 Consensus size: 28
74361633 ATTACAAAGT
*
74361643 ATATACATAGTATTAAAAATATGTACATA
1 ATATA-ATAGTATTAAAAATATATACATA
*
74361672 ATATAAT-G--TTAAAAATACATACATA
1 ATATAATAGTATTAAAAATATATACATA
74361697 ATAT-ATAGTTATTAAAAAATATATACATA
1 ATATAATAG-TATT-AAAAATATATACATA
* *
74361726 AGATAATATGTA-AAAAAATATA
1 ATATAATA-GTATTAAAAATATA
74361748 ATATAGTATT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
24 2 0.03
25 20 0.31
27 1 0.02
28 13 0.20
29 22 0.34
30 5 0.08
31 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (28 bp):
ATATAATAGTATTAAAAATATATACATA
Found at i:74361713 original size:27 final size:27
Alignment explanation
Indices: 74361649--74361713 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 27
74361639 AAGTATATAC
**
74361649 ATAG-TATTAAAAATATGTACATAATAT
1 ATAGTTATT-AAAATACATACATAATAT
74361676 A-ATGTTA--AAAATACATACATAATAT
1 ATA-GTTATTAAAATACATACATAATAT
74361701 ATAGTTATTAAAA
1 ATAGTTATTAAAA
74361714 AATATATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
25 21 0.68
26 2 0.06
27 6 0.19
28 2 0.06
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (27 bp):
ATAGTTATTAAAATACATACATAATAT
Found at i:74361956 original size:21 final size:20
Alignment explanation
Indices: 74361930--74361970 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
74361920 ATATACCTAT
* *
74361930 ATATATATTAAAGATATATAC
1 ATATATAATAAA-ACATATAC
74361951 ATATATAATAAAACATATAC
1 ATATATAATAAAACATATAC
74361971 TAATATCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATATAATAAAACATATAC
Found at i:74362111 original size:50 final size:46
Alignment explanation
Indices: 74361994--74362173 Score: 186
Period size: 47 Copynumber: 3.8 Consensus size: 46
74361984 AATAATAAGG
* * * *
74361994 ATAATA-TAAAAATATATACATAAAATAGTATAAAAAATATATAACTA
1 ATAATATTAAAAATACATACATAATATA-CAT-AAAAATATATAATTA
*
74362041 ATAATATTAAAAATATATACATGAGATA-ACATAAAAATATATGAA-TA
1 ATAATATTAAAAATACATACAT-A-ATATACATAAAAATATAT-AATTA
* *
74362088 GTATGATATTTAAAAATACATACATAATATATATAAAAATATATAATTA
1 --ATAATA-TTAAAAATACATACATAATATACATAAAAATATATAATTA
*
74362137 ATAATATTAAAAATACATACATAATATATATGAAAAA
1 ATAATATTAAAAATACATACATAATATACAT-AAAAA
74362174 CACATACAAT
Statistics
Matches: 117, Mismatches: 6, Indels: 20
0.82 0.04 0.14
Matches are distributed among these distances:
46 25 0.21
47 28 0.24
48 24 0.21
49 23 0.20
50 17 0.15
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (46 bp):
ATAATATTAAAAATACATACATAATATACATAAAAATATATAATTA
Found at i:74362178 original size:24 final size:23
Alignment explanation
Indices: 74361916--74362191 Score: 134
Period size: 23 Copynumber: 11.9 Consensus size: 23
74361906 AATATTACAT
* *
74361916 AAATATATACCTATATATATATTAA
1 AAATACATACATA-ATATATA-TAA
* *
74361941 AGATATATACAT-ATATA-ATAA
1 AAATACATACATAATATATATAA
74361962 AACAT--ATAC-TAATATCA-ATAA
1 AA-ATACATACATAATAT-ATATAA
* **
74361983 TAATA-ATA-AGGATA-ATATAA
1 AAATACATACATAATATATATAA
* *
74362003 AAATATATACATAAAATAGTATAAA
1 AAATACATACATAATATA-TAT-AA
*
74362028 AAATATATA-ACTAATA-ATATTAA
1 AAATACATACA-TAATATATA-TAA
* *
74362051 AAATATATACATGAGATA-ACATAA
1 AAATACATACAT-A-ATATATATAA
* *
74362075 AAATATATGA-ATAGTATGATATTTAA
1 AAATACAT-ACATA--AT-ATATATAA
74362101 AAATACATACATAATATATATAA
1 AAATACATACATAATATATATAA
*
74362124 AAATATATA-ATTAATA-ATATTAA
1 AAATACATACA-TAATATATA-TAA
74362147 AAATACATACATAATATATATGAA
1 AAATACATACATAATATATAT-AA
*
74362171 AAACACATACA-ATATATATAT
1 AAATACATACATA-ATATATAT
74362192 TGGCAGGTCG
Statistics
Matches: 204, Mismatches: 20, Indels: 55
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.01
20 18 0.09
21 19 0.09
22 10 0.05
23 59 0.29
24 49 0.24
25 33 0.16
26 14 0.07
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.32
Consensus pattern (23 bp):
AAATACATACATAATATATATAA
Found at i:74362518 original size:2 final size:2
Alignment explanation
Indices: 74362513--74362565 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
74362503 TATATATATA
74362513 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
74362555 TG TG TG TG TG T
1 TG TG TG TG TG T
74362566 TTAAAAGAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:74363224 original size:30 final size:30
Alignment explanation
Indices: 74363180--74363273 Score: 101
Period size: 30 Copynumber: 3.3 Consensus size: 30
74363170 TTGTACTTGA
* *
74363180 GAGAATGTTGATGTTGATGATATTGTATAT
1 GAGAAAGTTTATGTTGATGATATTGTATAT
*
74363210 GAGAAAGTTTATGTTGCCT--TGATTGTAT-T
1 GAGAAAGTTTATGTTG-ATGAT-ATTGTATAT
74363239 ---AAAGTTTATGTTGATGATATTGTATAT
1 GAGAAAGTTTATGTTGATGATATTGTATAT
74363266 GAGAAAGT
1 GAGAAAGT
74363274 GATGTCAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
25 1 0.02
26 20 0.38
27 2 0.04
29 2 0.04
30 26 0.50
31 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.43
Consensus pattern (30 bp):
GAGAAAGTTTATGTTGATGATATTGTATAT
Found at i:74363260 original size:26 final size:28
Alignment explanation
Indices: 74363190--74363267 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 28
74363180 GAGAATGTTG
74363190 ATGTTGATGATATTGTATATGAGAAAGTTT
1 ATGTTGATGATATTGTATAT--GAAAGTTT
*
74363220 ATGTTGCCT--TGATTGTAT-T-AAAGTTT
1 ATGTTG-ATGAT-ATTGTATATGAAAGTTT
74363246 ATGTTGATGATATTGTATATGA
1 ATGTTGATGATATTGTATATGA
74363268 GAAAGTGATG
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
25 1 0.03
26 20 0.50
27 2 0.05
28 1 0.03
29 2 0.05
30 13 0.32
31 1 0.03
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (28 bp):
ATGTTGATGATATTGTATATGAAAGTTT
Found at i:74363676 original size:46 final size:46
Alignment explanation
Indices: 74363532--74363747 Score: 210
Period size: 46 Copynumber: 4.7 Consensus size: 46
74363522 TTTGTGTGCT
* *
74363532 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAGAGCC
* * * *
74363578 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-ATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGAGAGCC
* * *
74363626 AGTGTAAGATATGTCTGGGACATGCATCGACTTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATG-AGAGCC
* * * *
74363672 AGTGTAAAACATGT-TTGGACATGCATCGGCTACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCC
74363715 AGTGTAAGACCATGTCTGGGACATGACATCGGC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGC
74363748 ATTATACCCT
Statistics
Matches: 139, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
43 10 0.07
44 5 0.04
45 29 0.21
46 43 0.31
47 27 0.19
48 24 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCC
Found at i:74364590 original size:14 final size:14
Alignment explanation
Indices: 74364568--74364597 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
74364558 GATAAATATT
*
74364568 TTATTTGTTCTTAA
1 TTATGTGTTCTTAA
74364582 TTATGTGTTCTTAA
1 TTATGTGTTCTTAA
74364596 TT
1 TT
74364598 CTTGTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (14 bp):
TTATGTGTTCTTAA
Found at i:74370628 original size:28 final size:28
Alignment explanation
Indices: 74370565--74370774 Score: 377
Period size: 28 Copynumber: 7.5 Consensus size: 28
74370555 ATAATAAGTC
* *
74370565 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
74370592 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
74370620 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
74370648 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
74370676 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
74370704 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
74370732 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
74370760 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
74370775 GTACAATTTA
Statistics
Matches: 178, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 22 0.12
28 156 0.88
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:74373171 original size:29 final size:29
Alignment explanation
Indices: 74373139--74373196 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
74373129 TATACTATGG
74373139 TTACTAACTTATCCATCAAGCACTCATGT
1 TTACTAACTTATCCATCAAGCACTCATGT
74373168 TTACTAACTTATCCATCAAGCACTCATGT
1 TTACTAACTTATCCATCAAGCACTCATGT
74373197 CCAACCATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (29 bp):
TTACTAACTTATCCATCAAGCACTCATGT
Found at i:74375159 original size:28 final size:28
Alignment explanation
Indices: 74375123--74375180 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
74375113 CTTGTCATGG
74375123 ATCAACATTTTCTTACATTTCATGTAAT
1 ATCAACATTTTCTTACATTTCATGTAAT
74375151 ATCAACATTTTCTTACATTTCATGTAAT
1 ATCAACATTTTCTTACATTTCATGTAAT
74375179 AT
1 AT
74375181 TCTTCGATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (28 bp):
ATCAACATTTTCTTACATTTCATGTAAT
Found at i:74376484 original size:33 final size:33
Alignment explanation
Indices: 74376447--74376522 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
74376437 TACTTTCTAT
* *
74376447 TTGGTGTGCTGGTTGGATTCGCTCTTATAAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATAAGCA
*
74376480 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATAAGCA
74376513 TTGGTGTGAT
1 TTGGTGTGAT
74376523 AGAGGGATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.16, C:0.11, G:0.33, T:0.41
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATAAGCA
Found at i:74376531 original size:33 final size:33
Alignment explanation
Indices: 74376461--74376536 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
74376451 TGTGCTGGTT
* * **
74376461 GGATTCGCTCTTATAAGCATTGGTGTGATGGTT
1 GGATTAGCTCTTATAAGCATTGGTGTGATAGAG
*
74376494 GGATTAGCTCTTATGAGCATTGGTGTGATAGAG
1 GGATTAGCTCTTATAAGCATTGGTGTGATAGAG
*
74376527 GGATTGGCTC
1 GGATTAGCTC
74376537 GAGTGAGCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.36
Consensus pattern (33 bp):
GGATTAGCTCTTATAAGCATTGGTGTGATAGAG
Found at i:74376544 original size:33 final size:33
Alignment explanation
Indices: 74376461--74376546 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 33
74376451 TGTGCTGGTT
* * * * **
74376461 GGATTCGCTCTTATAAGCATTGGTGTGATGGTT
1 GGATTAGCTCTGATGAGCATTGGTGTGATAGAG
*
74376494 GGATTAGCTCTTATGAGCATTGGTGTGATAGAG
1 GGATTAGCTCTGATGAGCATTGGTGTGATAGAG
*
74376527 GGATTGGCTC-GAGTGAGCAT
1 GGATTAGCTCTGA-TGAGCAT
74376547 CTTGTGTGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 1 0.02
33 44 0.98
ACGTcount: A:0.21, C:0.12, G:0.34, T:0.34
Consensus pattern (33 bp):
GGATTAGCTCTGATGAGCATTGGTGTGATAGAG
Found at i:74377219 original size:23 final size:23
Alignment explanation
Indices: 74377185--74377229 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
74377175 GGTTGCATTA
74377185 ATGTTATGTTTTAGTATAAATGT
1 ATGTTATGTTTTAGTATAAATGT
* *
74377208 ATGTATAT-TTTTGGTATCAATG
1 ATGT-TATGTTTTAGTATAAATG
74377230 AGGGTACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (23 bp):
ATGTTATGTTTTAGTATAAATGT
Found at i:74378940 original size:28 final size:28
Alignment explanation
Indices: 74378877--74378999 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
74378867 ATATTAAGTC
*
74378877 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
74378904 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
74378932 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
74378960 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
74378989 CGCACACTTAG
1 CGCACACTTAG
74379000 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:74381474 original size:9 final size:9
Alignment explanation
Indices: 74381460--74381492 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
74381450 TTAATTGGGA
74381460 AATTAATTT
1 AATTAATTT
*
74381469 AGTTAATTT
1 AATTAATTT
74381478 AATTAA-TT
1 AATTAATTT
74381486 AATTAAT
1 AATTAAT
74381493 ATTTATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (9 bp):
AATTAATTT
Found at i:74383590 original size:26 final size:26
Alignment explanation
Indices: 74383561--74383642 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
74383551 TGATACAAAT
74383561 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
74383587 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
74383613 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
74383639 TGAT
1 TGAT
74383643 GGGCATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:74384791 original size:52 final size:52
Alignment explanation
Indices: 74384713--74384818 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
74384703 TTGAATAGTT
74384713 AGATTAACGTGTTAGTAATCCAATTGTAGGCGGTTCGTGTGTGGATCTCGTC
1 AGATTAACGTGTTAGTAATCCAATTGTAGGCGGTTCGTGTGTGGATCTCGTC
74384765 AGATTAACGTGTTAGTAATCCAATTGTAGGCGGTTCGTGTGTGGATCTCGTC
1 AGATTAACGTGTTAGTAATCCAATTGTAGGCGGTTCGTGTGTGGATCTCGTC
74384817 AG
1 AG
74384819 CATATCGTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (52 bp):
AGATTAACGTGTTAGTAATCCAATTGTAGGCGGTTCGTGTGTGGATCTCGTC
Found at i:74385378 original size:27 final size:26
Alignment explanation
Indices: 74385277--74385387 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 26
74385267 AGGAAGCGTC
* * *
74385277 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
74385304 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
74385331 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
74385359 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
74385385 CTG
1 CTG
74385388 TCAGCCATGC
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
26 5 0.07
27 54 0.71
28 17 0.22
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:74385381 original size:54 final size:54
Alignment explanation
Indices: 74385277--74385387 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
74385267 AGGAAGCGTC
*
74385277 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
74385331 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
74385385 CTG
1 CTG
74385388 TCAGCCATGC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:74387592 original size:21 final size:21
Alignment explanation
Indices: 74387570--74387610 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
74387560 CCATAACCTT
74387570 AAACCTTAAATATTAGATTTTA
1 AAACCTTAAATATT-GATTTTA
**
74387592 AAAGTTTAAATATTGATTT
1 AAACCTTAAATATTGATTT
74387611 GTTTGAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (21 bp):
AAACCTTAAATATTGATTTTA
Found at i:74396956 original size:14 final size:14
Alignment explanation
Indices: 74396937--74396970 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
74396927 ATAACATATA
74396937 AATTTTTTTATAAT
1 AATTTTTTTATAAT
* *
74396951 AATTTTTTTGTTAT
1 AATTTTTTTATAAT
74396965 AATTTT
1 AATTTT
74396971 ATAAAATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (14 bp):
AATTTTTTTATAAT
Found at i:74403117 original size:18 final size:18
Alignment explanation
Indices: 74403096--74403195 Score: 101
Period size: 18 Copynumber: 5.6 Consensus size: 18
74403086 TAACATTTAA
*
74403096 TTATTCAGTAGCAATTAG
1 TTATTCAGTAGCAATCAG
* *
74403114 TTATTCAGTAACAATCAT
1 TTATTCAGTAGCAATCAG
**
74403132 TTGCTCAGTAGCAATCAG
1 TTATTCAGTAGCAATCAG
* * *
74403150 TTATTCAGTAACGATCAA
1 TTATTCAGTAGCAATCAG
* *
74403168 TTATTCAGTAACAGTCAG
1 TTATTCAGTAGCAATCAG
*
74403186 TCATTCAGTA
1 TTATTCAGTA
74403196 CTTTTATTTA
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAGCAATCAG
Found at i:74403176 original size:36 final size:36
Alignment explanation
Indices: 74403084--74403195 Score: 134
Period size: 36 Copynumber: 3.1 Consensus size: 36
74403074 AGTTTCATTT
* * *
74403084 AGTAACATTTAATTATTCAGTAGCAATTAGTTATTC
1 AGTAACAATCAATTATTCAGTAGCAATCAGTTATTC
* **
74403120 AGTAACAATCATTTGCTCAGTAGCAATCAGTTATTC
1 AGTAACAATCAATTATTCAGTAGCAATCAGTTATTC
* * * *
74403156 AGTAACGATCAATTATTCAGTAACAGTCAGTCATTC
1 AGTAACAATCAATTATTCAGTAGCAATCAGTTATTC
74403192 AGTA
1 AGTA
74403196 CTTTTATTTA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 63 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (36 bp):
AGTAACAATCAATTATTCAGTAGCAATCAGTTATTC
Found at i:74404275 original size:27 final size:27
Alignment explanation
Indices: 74404245--74404298 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
74404235 TCCCTAATTC
* *
74404245 ATCTTTTTGTTCAACATGAACTATGTT
1 ATCTTTTTGTTCAACATAAAATATGTT
74404272 ATCTTTTTGTTCAACATAAAATATGTT
1 ATCTTTTTGTTCAACATAAAATATGTT
74404299 CAACAACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (27 bp):
ATCTTTTTGTTCAACATAAAATATGTT
Found at i:74404506 original size:21 final size:20
Alignment explanation
Indices: 74404449--74404508 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 20
74404439 TTCTTTTATT
*
74404449 TTTCTCCTTTCTTTT-TTCC
1 TTTCTCCTTTCTTTTCTTTC
74404468 TTTC-CCGTTT-TGCTTTCTGTTC
1 TTTCTCC-TTTCT--TTTCT-TTC
74404490 TTTCTCCTTTCTTTTCTTT
1 TTTCTCCTTTCTTTTCTTT
74404509 TGTTTCTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 13
0.70 0.02 0.28
Matches are distributed among these distances:
18 3 0.09
19 7 0.21
20 5 0.15
21 6 0.18
22 9 0.27
23 3 0.09
ACGTcount: A:0.00, C:0.28, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTCTCCTTTCTTTTCTTTC
Found at i:74404692 original size:31 final size:28
Alignment explanation
Indices: 74404651--74404719 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
74404641 TGTTTACCTC
*
74404651 ATAAAAATCTTATAATTTAATTAATTATCAA
1 ATAAAAATCTT-TAATTTAA-TAATAAT-AA
* *
74404682 ATAAACATCTTTTATTTAATAATAATAA
1 ATAAAAATCTTTAATTTAATAATAATAA
*
74404710 ATAAATATCT
1 ATAAAAATCT
74404720 ATTTAATTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.32
29 6 0.18
30 7 0.21
31 10 0.29
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (28 bp):
ATAAAAATCTTTAATTTAATAATAATAA
Found at i:74404734 original size:29 final size:28
Alignment explanation
Indices: 74404651--74404734 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
74404641 TGTTTACCTC
* * *
74404651 ATAAAAATCTTATAATTTAATTAATTATCAA
1 ATAAACATCTTTTAA-TTAA-TAATAAT-AA
*
74404682 ATAAACATCTTTTATTTAATAATAATAA
1 ATAAACATCTTTTAATTAATAATAATAA
* *
74404710 ATAAATATCTATTTAATTACTAATA
1 ATAAACATCT-TTTAATTAATAATA
74404735 TTTGTATTAC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
28 11 0.24
29 18 0.40
30 4 0.09
31 12 0.27
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (28 bp):
ATAAACATCTTTTAATTAATAATAATAA
Found at i:74405066 original size:3 final size:3
Alignment explanation
Indices: 74405058--74405094 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
74405048 ATATAAAACC
74405058 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
74405095 ATAACATCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:74407949 original size:13 final size:13
Alignment explanation
Indices: 74407931--74407961 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
74407921 TGTGTAAATG
74407931 GAAATGGATATAT
1 GAAATGGATATAT
*
74407944 GAAATGGCTATAT
1 GAAATGGATATAT
74407957 GAAAT
1 GAAAT
74407962 TAGTCATGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (13 bp):
GAAATGGATATAT
Found at i:74416374 original size:46 final size:46
Alignment explanation
Indices: 74416307--74416511 Score: 329
Period size: 46 Copynumber: 4.5 Consensus size: 46
74416297 AACCCGCCCC
* *
74416307 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
*
74416353 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
*
74416399 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
* * *
74416445 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
* *
74416491 TAGGTGAATTCGGACTCAACT
1 TAAGTGAACTCGGACTCAACT
74416512 AACAAGTTCG
Statistics
Matches: 150, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 150 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
Found at i:74416980 original size:30 final size:30
Alignment explanation
Indices: 74416946--74417005 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
74416936 ATTTAATACG
74416946 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
74416976 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
74417006 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:74424477 original size:30 final size:30
Alignment explanation
Indices: 74424443--74424502 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
74424433 ATTTAATACG
74424443 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
74424473 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
74424503 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:74427449 original size:45 final size:45
Alignment explanation
Indices: 74427399--74427508 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
74427389 TCCTATTTAC
*
74427399 CATGATGCCATAACGTCTTTTAGCCATGGTCTTACTCAT-TTATAT
1 CATGATGCCATAACGTCTTTTAGCCATGGTCTTACTCATCCT-TAT
* * * *
74427444 CATGATGCCATAGCATCTTTTAGCTATGGTCTTACTTATCCTTAT
1 CATGATGCCATAACGTCTTTTAGCCATGGTCTTACTCATCCTTAT
74427489 CATGATGCCATAACGT-TTTT
1 CATGATGCCATAACGTCTTTT
74427509 CAATTATGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
44 4 0.07
45 52 0.91
46 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (45 bp):
CATGATGCCATAACGTCTTTTAGCCATGGTCTTACTCATCCTTAT
Found at i:74427522 original size:90 final size:90
Alignment explanation
Indices: 74427360--74427529 Score: 211
Period size: 90 Copynumber: 1.9 Consensus size: 90
74427350 GAAATAAGGT
* *
74427360 CATAGCGTCTTTTAGCTATGTCATCTTAGTCCTATTTACCATGATGCCATAACGTCTTTTAGCCA
1 CATAGCATCTTTTAGCTATGTCATCTTAGTCC--TTTACCATGATGCCATAACGTCTTTTAACCA
*
74427425 TGGTCTTACTCATTTATATCATGATGC
64 TGATCTTACTCATTTATATCATGATGC
* * **
74427452 CATAGCATCTTTTAGCTATGGTCTTACTTA-TCC-TTATCATGATGCCATAACGT-TTTTCAATT
1 CATAGCATCTTTTAGCTAT-GTCAT-CTTAGTCCTTTACCATGATGCCATAACGTCTTTT-AACC
74427514 ATGATCTTACTCATTT
63 ATGATCTTACTCATTT
74427530 TTAGGCATAT
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
89 4 0.06
90 35 0.51
92 18 0.26
93 7 0.10
94 4 0.06
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (90 bp):
CATAGCATCTTTTAGCTATGTCATCTTAGTCCTTTACCATGATGCCATAACGTCTTTTAACCATG
ATCTTACTCATTTATATCATGATGC
Found at i:74428868 original size:14 final size:14
Alignment explanation
Indices: 74428849--74428876 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
74428839 CGCTTGAGTC
74428849 GGGCAAATAGCGTT
1 GGGCAAATAGCGTT
74428863 GGGCAAATAGCGTT
1 GGGCAAATAGCGTT
74428877 ATATTTAGGT
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):
GGGCAAATAGCGTT
Found at i:74430728 original size:27 final size:26
Alignment explanation
Indices: 74430681--74430735 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
74430671 AACAAATTAA
74430681 AAATAAATTAAAAAAATATGTATACTT
1 AAATAAATTAAAAAAATATGTA-ACTT
* *
74430708 AAATAACATTAAGATAA-ATGTAACTT
1 AAATAA-ATTAAAAAAATATGTAACTT
74430734 AA
1 AA
74430736 CAAGCAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 11 0.44
28 8 0.32
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.31
Consensus pattern (26 bp):
AAATAAATTAAAAAAATATGTAACTT
Found at i:74432600 original size:90 final size:89
Alignment explanation
Indices: 74432412--74432601 Score: 231
Period size: 90 Copynumber: 2.1 Consensus size: 89
74432402 CGAGTTTTGG
* *
74432412 ATGAACCACCAAAAGTTGCAAGTTAGTACACTGCTAAATGGTTGTAAATACACAACATAATTGCA
1 ATGAACCACCAAAAGTTACAAGTTAATACACTGCTAAATGGTTGTAAATACACAACATAATTGCA
* *
74432477 GATAAAAGTTGCCAGATAATGGGT
66 GATAAAAGCTGCCAGATAATGGGA
* * * * *
74432501 ATGCGAACCACC-AATGTTACAGGTTAATACGCTG-TCAAATGGTTGTGAATACACAACATATTT
1 AT--GAACCACCAAAAGTTACAAGTTAATACACTGCT-AAATGGTTGTAAATACACAACATAATT
*
74432564 GCAGATAAAAGCTGCCAGATAATATGTGA
63 GCAGATAAAAGCTGCCAGAT-A-ATGGGA
74432593 ATGAACCAC
1 ATGAACCAC
74432602 AGGATTTGCA
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
89 3 0.03
90 68 0.79
91 9 0.10
92 6 0.07
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (89 bp):
ATGAACCACCAAAAGTTACAAGTTAATACACTGCTAAATGGTTGTAAATACACAACATAATTGCA
GATAAAAGCTGCCAGATAATGGGA
Found at i:74433040 original size:21 final size:20
Alignment explanation
Indices: 74433016--74433056 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
74433006 TAATATGAAT
*
74433016 AAATCATAAAATTTTGGGTGA
1 AAATCAT-AAATTTTGAGTGA
*
74433037 AAATCGTAAATTTTGAGTGA
1 AAATCATAAATTTTGAGTGA
74433057 CAGAGGACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (20 bp):
AAATCATAAATTTTGAGTGA
Found at i:74435896 original size:20 final size:20
Alignment explanation
Indices: 74435871--74435908 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
74435861 CCCCTTTAAA
*
74435871 TAAAAAATTTAATTTAACCC
1 TAAAAAAATTAATTTAACCC
74435891 TAAAAAAATTAATTTAAC
1 TAAAAAAATTAATTTAAC
74435909 TGTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAAAATTAATTTAACCC
Found at i:74438293 original size:24 final size:24
Alignment explanation
Indices: 74438254--74438309 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 24
74438244 TAAATGTTAA
*
74438254 TTTTTAAATATTTTAA-AGAAT-AT
1 TTTTTTAATATTTTAATA-AATAAT
74438277 TTTTTTAATATTCTTAATAAATAAT
1 TTTTTTAATATT-TTAATAAATAAT
74438302 TTTTTTAA
1 TTTTTTAA
74438310 GATTAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 11 0.38
24 7 0.24
25 11 0.38
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTTTAATATTTTAATAAATAAT
Found at i:74439288 original size:6 final size:6
Alignment explanation
Indices: 74439277--74439305 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
74439267 CAAAACTAAA
74439277 GTGTTG GTGTTG GTGTTG GTGTTG GTGTT
1 GTGTTG GTGTTG GTGTTG GTGTTG GTGTT
74439306 TTTGATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (6 bp):
GTGTTG
Found at i:74439576 original size:21 final size:20
Alignment explanation
Indices: 74439548--74439590 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
74439538 ATATTTCATG
*
74439548 TAAAATTATATTAAATT-ATT
1 TAAAATTAT-CTAAATTAATT
74439568 TAAATATTATCTAAATTAATT
1 TAAA-ATTATCTAAATTAATT
74439589 TA
1 TA
74439591 TTGTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAAATTATCTAAATTAATT
Found at i:74453323 original size:35 final size:35
Alignment explanation
Indices: 74453273--74453357 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 35
74453263 AATCGACTCA
* *
74453273 AAAAAGGTTGAGATAGACCATT-T-TATGCCAACCTT
1 AAAAAGGTTGGGATAGA-C-TTGTCTAAGCCAACCTT
* *
74453308 AAAAATGTTGGGATAGACTTGTCTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACTTGTCTAAGCCAACCTT
74453343 AAAAAGGTTGGGATA
1 AAAAAGGTTGGGATA
74453358 AACCTTGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
33 2 0.05
34 2 0.05
35 39 0.91
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACTTGTCTAAGCCAACCTT
Found at i:74460592 original size:20 final size:20
Alignment explanation
Indices: 74460567--74460618 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
74460557 AAGGTGAGGG
74460567 ACACGGGCGTGTCCCCAAGC
1 ACACGGGCGTGTCCCCAAGC
**
74460587 ACACGGGCGTGTCCCTGAGC
1 ACACGGGCGTGTCCCCAAGC
74460607 ACACGGGCGTGT
1 ACACGGGCGTGT
74460619 GAGGCATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.13
Consensus pattern (20 bp):
ACACGGGCGTGTCCCCAAGC
Found at i:74464582 original size:22 final size:23
Alignment explanation
Indices: 74464552--74464595 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
74464542 AACCTGAAAA
74464552 AAACTAAAAGTTCTACAATATCC
1 AAACTAAAAGTTCTACAATATCC
74464575 AAAC-AAAAGTTCTACAATATC
1 AAACTAAAAGTTCTACAATATC
74464596 TATATATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (23 bp):
AAACTAAAAGTTCTACAATATCC
Found at i:74486640 original size:11 final size:11
Alignment explanation
Indices: 74486624--74486648 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
74486614 ATAGGCTAAA
74486624 TACTAAAATTT
1 TACTAAAATTT
74486635 TACTAAAATTT
1 TACTAAAATTT
74486646 TAC
1 TAC
74486649 ACTACTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (11 bp):
TACTAAAATTT
Found at i:74488603 original size:29 final size:29
Alignment explanation
Indices: 74488571--74488629 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
74488561 CCTATACTCA
74488571 TTCCCATATCCTTGAATTGGGAATAATGT
1 TTCCCATATCCTTGAATTGGGAATAATGT
74488600 TTCCCATATCCTTGAATTGGGAATAATGT
1 TTCCCATATCCTTGAATTGGGAATAATGT
74488629 T
1 T
74488630 GGCTTAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (29 bp):
TTCCCATATCCTTGAATTGGGAATAATGT
Found at i:74489126 original size:30 final size:30
Alignment explanation
Indices: 74489092--74489154 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
74489082 ACTTATTCTA
*
74489092 TTGTTACTTTTGTCATTATTTTA-AAGACAT
1 TTGTTAATTTTGTCATTATTTTAGAA-ACAT
*
74489122 TTGTTAATTTTGTTATTATTTTAGAAACAT
1 TTGTTAATTTTGTCATTATTTTAGAAACAT
74489152 TTG
1 TTG
74489155 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTCATTATTTTAGAAACAT
Found at i:74489306 original size:12 final size:12
Alignment explanation
Indices: 74489276--74489308 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
74489266 TATATATTTT
74489276 AAAATT-ATATA
1 AAAATTAATATA
74489287 AAAA-TAATATA
1 AAAATTAATATA
74489298 AAAATTAATAT
1 AAAATTAATAT
74489309 GGGTCGGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:74519988 original size:41 final size:41
Alignment explanation
Indices: 74519931--74520121 Score: 251
Period size: 41 Copynumber: 4.7 Consensus size: 41
74519921 TTGGGGTTTA
* *
74519931 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCTGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTCAGCCAGTGTCAT
* *
74519972 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCTAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTCAGCCAGTGTCAT
*
74520013 AATCCGAGCTTGGTCTTGAAGGGCTTTTCAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTCAGCCAGTGTCAT
* * * * * **
74520054 AA-CCGAACCTAGTTTCGAAGGGC-CTTCAGGCCAAAGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTCA-GCCAGTGTCAT
74520094 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
74520122 TGAGTCAGCG
Statistics
Matches: 129, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 4 0.03
40 27 0.21
41 96 0.74
42 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTCAGCCAGTGTCAT
Found at i:74520115 original size:81 final size:82
Alignment explanation
Indices: 74519931--74520121 Score: 251
Period size: 81 Copynumber: 2.3 Consensus size: 82
74519921 TTGGGGTTTA
* * * * *
74519931 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCTGTGTCATAATCCGAGCTTGGTCTCGAAGGGC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTCAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGGC
** * **
74519996 TTTTGAGCTAGTGTCAT
66 TTCAGAGCCAAAGTCAT
* *
74520013 AATCCGAGCTTGGTCTTGAAGGGCTTTTCAGCCAGTGTCATAA-CCGAACCTAGTTTCGAAGGGC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTCAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGG-
74520077 CTTCAG-GCCAAAGTCAT
65 CTTCAGAGCCAAAGTCAT
74520094 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
74520122 TGAGTCAGCG
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
81 51 0.54
82 44 0.46
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (82 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTCAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGGC
TTCAGAGCCAAAGTCAT
Found at i:74530909 original size:13 final size:13
Alignment explanation
Indices: 74530887--74530919 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
74530877 AAGGATTTGT
74530887 TTAT-TAAACTAA
1 TTATCTAAACTAA
74530899 TTATCTAAACTAA
1 TTATCTAAACTAA
*
74530912 TTAACTAA
1 TTATCTAA
74530920 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:74535104 original size:20 final size:21
Alignment explanation
Indices: 74535061--74535105 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
74535051 TTATTTTCAT
74535061 TTTAA-TTTATGTTTTTAATG
1 TTTAATTTTATGTTTTTAATG
74535081 -TTAATTTTAT-TTGTTT-ATG
1 TTTAATTTTATGTT-TTTAATG
74535100 TTTAAT
1 TTTAAT
74535106 AAGGGGGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (21 bp):
TTTAATTTTATGTTTTTAATG
Found at i:74537575 original size:20 final size:21
Alignment explanation
Indices: 74537534--74537578 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
74537524 AACACATGTA
* *
74537534 TTCA-CAAAATTTGAGAACTT
1 TTCATCAAAATTTGACAAATT
74537554 TTCATCAAAATTT-ACAAATT
1 TTCATCAAAATTTGACAAATT
74537574 TTCAT
1 TTCAT
74537579 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (21 bp):
TTCATCAAAATTTGACAAATT
Found at i:74540925 original size:188 final size:188
Alignment explanation
Indices: 74540603--74540976 Score: 640
Period size: 188 Copynumber: 2.0 Consensus size: 188
74540593 ACTGTTACAC
* *
74540603 ACAGACATCTTTACAATTCAAATATCCTTTCTCCGACTAATTTTGTTATCATAAACCCTGTATTA
1 ACAGACATCTTTACAATTCAAATATCCTTTCCCCGACTAATTTTGTTATCATAAACCCCGTATTA
* *
74540668 TTCCACTCACTATCAAAAATCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAGTGA
66 TTCCACTCACTATCAAAAACCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAGCGA
*
74540733 TAATGAGATAGAGTTACCATAAATTTCGTATCAGGATTGTCATAATCTCCAAAAAGTA
131 TAATGAGATAAAGTTACCATAAATTTCGTATCAGGATTGTCATAATCTCCAAAAAGTA
* * *
74540791 ACAGTCATCTTTACAATTCAAATATTCTTTCCCCGACTAATTTTGTTATCATAAACCCCGTATTG
1 ACAGACATCTTTACAATTCAAATATCCTTTCCCCGACTAATTTTGTTATCATAAACCCCGTATTA
* * *
74540856 TTCCAGTCACTATCGAAACCCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAGCGA
66 TTCCACTCACTATCAAAAACCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAGCGA
*
74540921 TAATGAGATAAAGTTACCATAAATTTCGTATCGGGATTGTCATAATCTCCAAAAAG
131 TAATGAGATAAAGTTACCATAAATTTCGTATCAGGATTGTCATAATCTCCAAAAAG
74540977 GGAGATGTTA
Statistics
Matches: 174, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
188 174 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (188 bp):
ACAGACATCTTTACAATTCAAATATCCTTTCCCCGACTAATTTTGTTATCATAAACCCCGTATTA
TTCCACTCACTATCAAAAACCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAGCGA
TAATGAGATAAAGTTACCATAAATTTCGTATCAGGATTGTCATAATCTCCAAAAAGTA
Found at i:74548703 original size:5 final size:5
Alignment explanation
Indices: 74548693--74548807 Score: 143
Period size: 5 Copynumber: 24.0 Consensus size: 5
74548683 TTTTTTTATA
74548693 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * *
74548743 ATAAT ATAAT ATAAT ATAAT A-ATAT TTACT -TAA- ATAAT A-AGT A-AAT
1 ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT
*
74548789 AT-AT ATAAT GTAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT
74548808 TATATGAATA
Statistics
Matches: 97, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
4 16 0.16
5 80 0.82
6 1 0.01
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:74553914 original size:105 final size:105
Alignment explanation
Indices: 74553732--74553942 Score: 413
Period size: 105 Copynumber: 2.0 Consensus size: 105
74553722 AGAGTATGAG
*
74553732 AATGAAATTACTATGAGTAAACAGGCATGTACGTAAGCCTAAAATTGTAAATTCATGATTATTGT
1 AATGAAATTACTATGAGTAAACAGGCATATACGTAAGCCTAAAATTGTAAATTCATGATTATTGT
74553797 GGAAATAATTGTTTACTACCCATTGTGGTTGATAGTGTAC
66 GGAAATAATTGTTTACTACCCATTGTGGTTGATAGTGTAC
74553837 AATGAAATTACTATGAGTAAACAGGCATATACGTAAGCCTAAAATTGTAAATTCATGATTATTGT
1 AATGAAATTACTATGAGTAAACAGGCATATACGTAAGCCTAAAATTGTAAATTCATGATTATTGT
74553902 GGAAATAATTGTTTACTACCCATTGTGGTTGATAGTGTAC
66 GGAAATAATTGTTTACTACCCATTGTGGTTGATAGTGTAC
74553942 A
1 A
74553943 TACTTGTGAT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (105 bp):
AATGAAATTACTATGAGTAAACAGGCATATACGTAAGCCTAAAATTGTAAATTCATGATTATTGT
GGAAATAATTGTTTACTACCCATTGTGGTTGATAGTGTAC
Found at i:74555651 original size:68 final size:68
Alignment explanation
Indices: 74555513--74555761 Score: 410
Period size: 68 Copynumber: 3.6 Consensus size: 68
74555503 CATGTGAAGG
* * * *
74555513 ACACGGCCTCAGGACATGGGCACGTG-CTCTGGCCGTGTGAAGTCTACACTTGATTTTGGAATTT
1 ACACGGCCTAAGCACACGGGCATGTGACT-TGGCCGTGTGAA----ACACTTGATTTTGGAATTT
74555577 AAGTTGCC
61 AAGTTGCC
74555585 ACACGGCCTAAGCACACGGGCATGTGACTTGGCCGTGTGAAACACTTGATTTTGGAATTTAAGTT
1 ACACGGCCTAAGCACACGGGCATGTGACTTGGCCGTGTGAAACACTTGATTTTGGAATTTAAGTT
74555650 GCC
66 GCC
74555653 ACACGGCCTAAGCACACGGGCATGTGACTTGGCCGTGTGAAACACTTGATTTTGGAATTTAAGTT
1 ACACGGCCTAAGCACACGGGCATGTGACTTGGCCGTGTGAAACACTTGATTTTGGAATTTAAGTT
74555718 GCC
66 GCC
74555721 ACACGGCCTAAGCACACGGGCATGTGACTTGGCCGTGTGAA
1 ACACGGCCTAAGCACACGGGCATGTGACTTGGCCGTGTGAA
74555762 CCTATTTAGT
Statistics
Matches: 172, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
68 136 0.79
72 34 0.20
73 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (68 bp):
ACACGGCCTAAGCACACGGGCATGTGACTTGGCCGTGTGAAACACTTGATTTTGGAATTTAAGTT
GCC
Found at i:74566272 original size:5 final size:5
Alignment explanation
Indices: 74566255--74566294 Score: 71
Period size: 5 Copynumber: 7.8 Consensus size: 5
74566245 TCTTAGACCA
74566255 AATAT ATATAT AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT A-ATAT AATAT AATAT AATAT AATAT AATAT AATA
74566295 AATTAGGAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:74566414 original size:22 final size:21
Alignment explanation
Indices: 74566385--74566426 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
74566375 CCTTAAGCAT
74566385 TAAAAAAT-AATAAAATAAAAA
1 TAAAAAATAAAT-AAATAAAAA
74566406 TAAATAAATAAATAAATAAAA
1 TAAA-AAATAAATAAATAAAA
74566427 TGAAGGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 12 0.63
23 3 0.16
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAAAAATAAATAAATAAAAA
Found at i:74570344 original size:19 final size:19
Alignment explanation
Indices: 74570320--74570361 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
74570310 ACAAATATAT
74570320 AAGGCAAGACTAGAGGTTA
1 AAGGCAAGACTAGAGGTTA
74570339 AAGGCAAGACTAGAGGTTA
1 AAGGCAAGACTAGAGGTTA
74570358 AAGG
1 AAGG
74570362 GTTTACTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.43, C:0.10, G:0.33, T:0.14
Consensus pattern (19 bp):
AAGGCAAGACTAGAGGTTA
Found at i:74574298 original size:13 final size:14
Alignment explanation
Indices: 74574274--74574302 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
74574264 TAATGTTAAA
74574274 AAAATGTATTATTT
1 AAAATGTATTATTT
74574288 AAAAT-TATTATTT
1 AAAATGTATTATTT
74574301 AA
1 AA
74574303 GTTCAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
AAAATGTATTATTT
Found at i:74579133 original size:41 final size:40
Alignment explanation
Indices: 74579042--74579199 Score: 160
Period size: 41 Copynumber: 3.9 Consensus size: 40
74579032 ATACTCGATA
* * * *
74579042 TCTCGCACACTAAGTACCTTTCATAGCTGAAGCTATTATAA
1 TCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATT-CAG
*
74579083 TCTCGCACACTAAGCGCCTTTCATAGCCGAAGCTATCTCAG
1 TCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTAT-TCAG
* * *
74579124 TCTCACACACTAAGTGCCATAT-ATAGCCGAAGCTATTCCG
1 TCTCGCACACTAAGTGCC-TTTCATAGCCGAAGCTATTCAG
* *
74579164 AT-TTGCACACTAAGTG-CTTTATATAGCCGAAGCTAT
1 -TCTCGCACACTAAGTGCCTTT-CATAGCCGAAGCTAT
74579200 CTCGATACGC
Statistics
Matches: 100, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 29 0.29
41 65 0.65
42 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (40 bp):
TCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATTCAG
Found at i:74579187 original size:40 final size:40
Alignment explanation
Indices: 74579086--74579222 Score: 136
Period size: 40 Copynumber: 3.4 Consensus size: 40
74579076 ATTATAATCT
* * *
74579086 CGCACACTAAGCGCC-TTTCATAGCCGAAGCTATCTC-AGTCT
1 CGCACACTAAGTGCCATAT-ATAGCCGAAGCTATCTCGA-T-A
* *
74579127 CACACACTAAGTGCCATATATAGCCGAAGCTAT-TCCGATT
1 CGCACACTAAGTGCCATATATAGCCGAAGCTATCT-CGATA
* **
74579167 TGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATA
1 CGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGATA
*
74579207 CGCACACTAAATGCCA
1 CGCACACTAAGTGCCA
74579223 AACATAATCG
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
40 47 0.59
41 30 0.38
42 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (40 bp):
CGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGATA
Found at i:74580919 original size:151 final size:151
Alignment explanation
Indices: 74580645--74580947 Score: 597
Period size: 151 Copynumber: 2.0 Consensus size: 151
74580635 TGCCCCAATA
74580645 TTCTCCATTAAACCCATCATCTTAAATTTCCTCTACACTTTTATCCTCTTTATATTCTCTTTGTT
1 TTCTCCATTAAACCCATCATCTTAAATTTCCTCTACACTTTTATCCTCTTTATATTCTCTTTGTT
74580710 AACTGTATTACTTGCATTGTTTTTTTACGTATTTTATGTCTGAACCCTTAAGCTTTTATCCTCTA
66 AACTGTATTACTTGCATTGTTTTTTTACGTATTTTATGTCTGAACCCTTAAGCTTTTATCCTCTA
74580775 TTAATGTAACCTTCACTTCCT
131 TTAATGTAACCTTCACTTCCT
74580796 TTCTCCATTAAACCCATCATCTTAAATTTCCTCTACACTTTTATCCTCTTTATATTCTCTTTGTT
1 TTCTCCATTAAACCCATCATCTTAAATTTCCTCTACACTTTTATCCTCTTTATATTCTCTTTGTT
74580861 AACTGTATTACTTGCATTGTTTTTTTACGTATTTTATGTCTGAACCCTTAAGCTTTTATCCTCTA
66 AACTGTATTACTTGCATTGTTTTTTTACGTATTTTATGTCTGAACCCTTAAGCTTTTATCCTCTA
*
74580926 TTAATGTAACTTTCACTTCCT
131 TTAATGTAACCTTCACTTCCT
74580947 T
1 T
74580948 CTTCCCTCTC
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.22, C:0.23, G:0.06, T:0.49
Consensus pattern (151 bp):
TTCTCCATTAAACCCATCATCTTAAATTTCCTCTACACTTTTATCCTCTTTATATTCTCTTTGTT
AACTGTATTACTTGCATTGTTTTTTTACGTATTTTATGTCTGAACCCTTAAGCTTTTATCCTCTA
TTAATGTAACCTTCACTTCCT
Found at i:74583326 original size:26 final size:25
Alignment explanation
Indices: 74583297--74583396 Score: 110
Period size: 26 Copynumber: 3.9 Consensus size: 25
74583287 AATTTTCTTG
*
74583297 AAATTTTATCGGGGGTAAAATTGTTA
1 AAATTTTA-CGGGGGTAAAATTGTCA
* *
74583323 AAATTTTATCAGGGGTAAAATCGTCA
1 AAATTTTA-CGGGGGTAAAATTGTCA
* *
74583349 AAATTTTACGAAGGATAAAATTGTCA
1 AAATTTTACG-GGGGTAAAATTGTCA
* *
74583375 AAATTTTACTGGGGTAGAATTG
1 AAATTTTACGGGGGTAAAATTG
74583397 GGGTGAGAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
25 10 0.16
26 52 0.84
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (25 bp):
AAATTTTACGGGGGTAAAATTGTCA
Found at i:74584648 original size:29 final size:30
Alignment explanation
Indices: 74584590--74584648 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
74584580 TTCGAGATAG
74584590 TTTTTTTCTCTTTGCTCGACGTTCTATAGTT
1 TTTTTTTCTCTTTGCTCGACGTTC-ATAGTT
74584621 TTTTTTTCTCTTTGCTCGACGTTC-TAGT
1 TTTTTTTCTCTTTGCTCGACGTTCATAGT
74584649 CACTCCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 4 0.14
31 24 0.86
ACGTcount: A:0.08, C:0.20, G:0.14, T:0.58
Consensus pattern (30 bp):
TTTTTTTCTCTTTGCTCGACGTTCATAGTT
Found at i:74586402 original size:30 final size:30
Alignment explanation
Indices: 74586366--74586426 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
74586356 AATAATTTAA
74586366 GAGTGGAATGATCTAGAAACTAAGGAAAAT
1 GAGTGGAATGATCTAGAAACTAAGGAAAAT
74586396 GAGTGGAATGATCTAGAAACTAAGGAAAAT
1 GAGTGGAATGATCTAGAAACTAAGGAAAAT
74586426 G
1 G
74586427 GATGAATTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.46, C:0.07, G:0.28, T:0.20
Consensus pattern (30 bp):
GAGTGGAATGATCTAGAAACTAAGGAAAAT
Found at i:74588819 original size:46 final size:46
Alignment explanation
Indices: 74588752--74588933 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
74588742 AGTGTGCTCT
* *
74588752 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
74588798 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
74588844 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
74588890 ATGACA-GAAAATGAGTAAGATCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
74588934 TCACATCAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 122 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:74591656 original size:12 final size:12
Alignment explanation
Indices: 74591625--74591659 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
74591615 AAGAAACATT
*
74591625 ATCAGAACTAGA
1 ATCAGAATTAGA
74591637 ATCAGAATTAGA
1 ATCAGAATTAGA
74591649 ATCAGAATTAG
1 ATCAGAATTAG
74591660 GTGACAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (12 bp):
ATCAGAATTAGA
Found at i:74591681 original size:31 final size:31
Alignment explanation
Indices: 74591634--74591713 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
74591624 TATCAGAACT
* * * *
74591634 AGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
*
74591665 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
74591696 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
74591714 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 32 0.74
32 11 0.26
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:74591893 original size:27 final size:26
Alignment explanation
Indices: 74591850--74591951 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
74591840 GCTCAGTTAT
** *
74591850 CAGATATTGTGATAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
74591877 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
74591903 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
74591931 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
74591952 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 52 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:74592157 original size:27 final size:27
Alignment explanation
Indices: 74592119--74592205 Score: 156
Period size: 27 Copynumber: 3.2 Consensus size: 27
74592109 TTTGGCATTA
*
74592119 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACATGGGTATTTCG
74592146 GTAATTCTACCCTACATGGGTATTTCG
1 GTAATTCTACCCTACATGGGTATTTCG
*
74592173 GTAATTCTACCCTACATGGGTATTTCA
1 GTAATTCTACCCTACATGGGTATTTCG
74592200 GTAATT
1 GTAATT
74592206 TCATAATTGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACATGGGTATTTCG
Found at i:74592246 original size:27 final size:26
Alignment explanation
Indices: 74592213--74592285 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 26
74592203 ATTTCATAAT
*
74592213 TGAGGGTAAAACGGTAATTGTGTAAA
1 TGAGGGTAAAATGGTAATTGTGTAAA
*
74592239 CTGAGGGTAAAATGGTAATTTTGTAAA
1 -TGAGGGTAAAATGGTAATTGTGTAAA
74592266 TCGAGGGTAAAATGGTAATT
1 T-GAGGGTAAAATGGTAATT
74592286 CGTGGCGGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 1 0.02
27 42 0.98
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.30
Consensus pattern (26 bp):
TGAGGGTAAAATGGTAATTGTGTAAA
Found at i:74595069 original size:66 final size:67
Alignment explanation
Indices: 74594940--74595073 Score: 243
Period size: 66 Copynumber: 2.0 Consensus size: 67
74594930 ATACACTGAT
*
74594940 ATAATGACTCATAGAGTCGTACATGTCCTATAAGTATAGCGTATAGCTAACACTCTCCAACACAC
1 ATAATGACTCATAGAGTCGTACATGTCCCATAAGTATAGCGTATAGCTAACACTCTCCAACACAC
74595005 CA
66 CA
*
74595007 ATAATGACTCATAGAGTCGTACATGTCCCA-AAGTGTAGCGTATAGCTAACACTCTCCAACACAC
1 ATAATGACTCATAGAGTCGTACATGTCCCATAAGTATAGCGTATAGCTAACACTCTCCAACACAC
74595071 CA
66 CA
74595073 A
1 A
74595074 ACACATATAT
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
66 36 0.55
67 29 0.45
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (67 bp):
ATAATGACTCATAGAGTCGTACATGTCCCATAAGTATAGCGTATAGCTAACACTCTCCAACACAC
CA
Found at i:74600857 original size:46 final size:44
Alignment explanation
Indices: 74600768--74600880 Score: 113
Period size: 46 Copynumber: 2.5 Consensus size: 44
74600758 CGTAGCTGAT
**
74600768 GCATGTCCC-GACATGTCTTACACTAGCTTATATCTTGAGGCCGAA
1 GCATGTCCCAGACATGTCTTACACTAGC-TATATCTCAAGGCCG-A
* *
74600813 GCATGTCCCAGTCATGTCTTACACTAGC-ACTCATCTCAATGCCGA
1 GCATGTCCCAGACATGTCTTACACTAGCTA-T-ATCTCAAGGCCGA
*
74600858 TCTATGTCCCAGACATGGTCTTA
1 GC-ATGTCCCAGACAT-GTCTTA
74600881 TGCTGGCTCT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
44 1 0.02
45 12 0.21
46 38 0.67
47 6 0.11
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (44 bp):
GCATGTCCCAGACATGTCTTACACTAGCTATATCTCAAGGCCGA
Found at i:74601866 original size:27 final size:26
Alignment explanation
Indices: 74601811--74601913 Score: 93
Period size: 27 Copynumber: 3.8 Consensus size: 26
74601801 TGAAAATAAA
* * * *
74601811 ATAATGTGACAGGGTCACCAAATACAG
1 ATAATGTGGCAGAGCCACCAGAT-CAG
74601838 ATAATCGTGGCAGAGCCACCAGAAT-AG
1 ATAAT-GTGGCAGAGCCACCAG-ATCAG
74601865 ATATATGTGGCAGAGCCACCAGATCAG
1 ATA-ATGTGGCAGAGCCACCAGATCAG
*
74601892 ATATTTGTGGCATG-GCCACCAG
1 ATA-ATGTGGCA-GAGCCACCAG
74601914 GATGCTTCCT
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
26 2 0.03
27 47 0.71
28 15 0.23
29 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
ATAATGTGGCAGAGCCACCAGATCAG
Found at i:74603528 original size:25 final size:26
Alignment explanation
Indices: 74603499--74603551 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
74603489 TGAAATGCCC
74603499 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
74603524 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
74603550 AT
1 AT
74603552 TATCAAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:74606749 original size:34 final size:34
Alignment explanation
Indices: 74606681--74606797 Score: 119
Period size: 34 Copynumber: 3.4 Consensus size: 34
74606671 GGCTCGCATG
* * * **
74606681 ACATATAGGCTTGCATAAACCTAGGGTTTGCATA
1 ACATATAGGCTCGCATAATCTTAGGGTTCACATA
* * * *
74606715 ATATGTAGGCTCGCATGGA-CTTATGGTTCACATA
1 ACATATAGGCTCGCAT-AATCTTAGGGTTCACATA
*
74606749 ACATATAGGCTCGCATAATCTTAGGGTTCACATG
1 ACATATAGGCTCGCATAATCTTAGGGTTCACATA
*
74606783 GCATATAGGCTCGCA
1 ACATATAGGCTCGCA
74606798 CAGGTAGGGC
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
33 1 0.01
34 65 0.97
35 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (34 bp):
ACATATAGGCTCGCATAATCTTAGGGTTCACATA
Found at i:74608222 original size:41 final size:39
Alignment explanation
Indices: 74608143--74608237 Score: 118
Period size: 41 Copynumber: 2.4 Consensus size: 39
74608133 CCAGTTTGGA
* * * *
74608143 ACCCAATGTCTCATCGAATAATTGAAGTAATAATTTGAC
1 ACCCAGTGTCTCATCAAATAATTGAAGTAACAAATTGAC
* *
74608182 ACCCAGTGCCTCATCAAATTAATTCGAAGTAGCAAATTGAC
1 ACCCAGTGTCTCATCAAA-TAATT-GAAGTAACAAATTGAC
74608223 ACCCAGTGTCTCATC
1 ACCCAGTGTCTCATC
74608238 GACTCAAAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 15 0.32
40 5 0.11
41 27 0.57
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (39 bp):
ACCCAGTGTCTCATCAAATAATTGAAGTAACAAATTGAC
Found at i:74609151 original size:28 final size:33
Alignment explanation
Indices: 74609080--74609145 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
74609070 CCTTTTTCTT
* *
74609080 TTCTTTC-CTTTCTATTTCTTTCTTTTTCGTTTG
1 TTCTTTCTATTTCTATTTCTTTC-TTTTCATTTG
74609113 TTCTTTCTATTTCTATTTCTTTC-TTT-ATTTG
1 TTCTTTCTATTTCTATTTCTTTCTTTTCATTTG
74609144 TT
1 TT
74609146 TTTATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 6 0.20
32 3 0.10
33 7 0.23
34 14 0.47
ACGTcount: A:0.06, C:0.18, G:0.05, T:0.71
Consensus pattern (33 bp):
TTCTTTCTATTTCTATTTCTTTCTTTTCATTTG
Found at i:74611621 original size:3 final size:3
Alignment explanation
Indices: 74611608--74611659 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
74611598 TTTATTTCCT
* *
74611608 TTC TT- TTC TTC TTC TTA TTC TTC TTC TTC TTC TTC TCC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
74611655 TTC TT
1 TTC TT
74611660 TAGATCACTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:74614412 original size:22 final size:22
Alignment explanation
Indices: 74614387--74614430 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
74614377 AAGGGTAGAC
74614387 GATTTTGGAGA-GAAGATTAAGG
1 GATTTTGGAGAGGAA-ATTAAGG
*
74614409 GATTTTGGTGAGGAAATTAAGG
1 GATTTTGGAGAGGAAATTAAGG
74614431 AGTGAGGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.30
Consensus pattern (22 bp):
GATTTTGGAGAGGAAATTAAGG
Found at i:74614741 original size:22 final size:22
Alignment explanation
Indices: 74614715--74614758 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
74614705 AGGGGTGGAT
74614715 GATTTTGGGGA-GAAGATTAAGG
1 GATTTTGGGGAGGAA-ATTAAGG
*
74614737 GATTTTGGTGAGGAAATTAAGG
1 GATTTTGGGGAGGAAATTAAGG
74614759 AGTGAGGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.30
Consensus pattern (22 bp):
GATTTTGGGGAGGAAATTAAGG
Found at i:74624266 original size:18 final size:19
Alignment explanation
Indices: 74624243--74624279 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
74624233 GCGGCAAGTG
74624243 ACGTTTTGGAAA-TTAATA
1 ACGTTTTGGAAATTTAATA
74624261 ACGTTTTGGAAATTTAATA
1 ACGTTTTGGAAATTTAATA
74624280 TCATTCTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (19 bp):
ACGTTTTGGAAATTTAATA
Found at i:74625074 original size:27 final size:27
Alignment explanation
Indices: 74625025--74625076 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
74625015 ATAAAACTCC
***
74625025 TAAAAAATTTAAAATACTTAATAATTA
1 TAAAAAATTTAAAATAAAAAATAATTA
*
74625052 TAAAAAATTTAGAATAAAAAATAAT
1 TAAAAAATTTAAAATAAAAAATAAT
74625077 AAAATAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (27 bp):
TAAAAAATTTAAAATAAAAAATAATTA
Found at i:74627604 original size:22 final size:22
Alignment explanation
Indices: 74627571--74627630 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
74627561 ATTAAAAATG
74627571 TAAAAGAA-TATTTAAAAAACAT
1 TAAAA-AATTATTTAAAAAACAT
* *
74627593 TAAAAAATTATTCCAAAAATCAT
1 TAAAAAATTATT-TAAAAAACAT
74627616 T--AAAATTATTTAAAA
1 TAAAAAATTATTTAAAA
74627631 TTGTATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.12
21 11 0.33
22 9 0.27
23 9 0.27
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (22 bp):
TAAAAAATTATTTAAAAAACAT
Found at i:74627663 original size:85 final size:85
Alignment explanation
Indices: 74627520--74627788 Score: 497
Period size: 85 Copynumber: 3.2 Consensus size: 85
74627510 TTTTGACTGG
74627520 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTAAAAAAATTAAAAATGTAAAAGAATATTTA
1 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTAAAAAAATTAAAAATGTAAAAGAATATTTA
74627585 AAAAACATTAAAAAATTATT
66 AAAAACATTAAAAAATTATT
*
74627605 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTTAAAAAATTAAAAATGTAAAAGAATATTTA
1 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTAAAAAAATTAAAAATGTAAAAGAATATTTA
*
74627670 AAAAACATTAAAATATTATT
66 AAAAACATTAAAAAATTATT
74627690 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTAAAAAAATTAAAAATGTAAAAGAATATTTA
1 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTAAAAAAATTAAAAATGTAAAAGAATATTTA
74627755 AAAAACATTAAAAAATTATT
66 AAAAACATTAAAAAATTATT
*
74627775 --AAAAATTATTAAAA
1 CCAAAAATCATTAAAA
74627789 ATGATAATAA
Statistics
Matches: 179, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
83 13 0.07
85 166 0.93
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (85 bp):
CCAAAAATCATTAAAATTATTTAAAATTGTATTTTAAAAAAATTAAAAATGTAAAAGAATATTTA
AAAAACATTAAAAAATTATT
Found at i:74627767 original size:10 final size:10
Alignment explanation
Indices: 74627723--74627820 Score: 66
Period size: 11 Copynumber: 9.9 Consensus size: 10
74627713 AAATTGTATT
74627723 TTAAAAAA-A
1 TTAAAAAATA
74627732 TT-AAAAAT-
1 TTAAAAAATA
*
74627740 GTAAAAGAATA
1 TTAAAA-AATA
*
74627751 TTTAAAAAACA
1 -TTAAAAAATA
74627762 TTAAAAAATTA
1 TTAAAAAA-TA
*
74627773 TTAAAAATTA
1 TTAAAAAATA
74627783 TT-AAAAATGA
1 TTAAAAAAT-A
74627793 -TAATAAAAT-
1 TTAA-AAAATA
74627802 TT-AAAAATGA
1 TTAAAAAAT-A
74627812 TTAAAAAAT
1 TTAAAAAAT
74627821 TATGAAAATT
Statistics
Matches: 70, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
8 11 0.16
9 12 0.17
10 20 0.29
11 22 0.31
12 5 0.07
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
TTAAAAAATA
Found at i:74627775 original size:11 final size:11
Alignment explanation
Indices: 74627752--74627828 Score: 60
Period size: 10 Copynumber: 7.5 Consensus size: 11
74627742 AAAAGAATAT
*
74627752 TTAAAAAA-CA
1 TTAAAAAATTA
74627762 TTAAAAAATTA
1 TTAAAAAATTA
74627773 TT-AAAAATTA
1 TTAAAAAATTA
*
74627783 TT-AAAAATGA
1 TTAAAAAATTA
74627793 -TAATAAAA-T-
1 TTAA-AAAATTA
*
74627802 TT-AAAAATGA
1 TTAAAAAATTA
74627812 TTAAAAAATTA
1 TTAAAAAATTA
*
74627823 TGAAAA
1 TTAAAA
74627829 TTATAAGTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
8 4 0.07
9 2 0.04
10 29 0.54
11 19 0.35
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (11 bp):
TTAAAAAATTA
Found at i:74627788 original size:19 final size:19
Alignment explanation
Indices: 74627756--74627829 Score: 71
Period size: 19 Copynumber: 3.8 Consensus size: 19
74627746 GAATATTTAA
*
74627756 AAAACATTA-AAAAATTATT
1 AAAA-ATTATAAAAATGATT
*
74627775 AAAAATTATTAAAAATGATA
1 AAAAATTA-TAAAAATGATT
74627795 ATAAAATT-TAAAAATGATT
1 A-AAAATTATAAAAATGATT
*
74627814 AAAAAATTATGAAAAT
1 -AAAAATTATAAAAAT
74627830 TATAAGTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
18 4 0.09
19 20 0.43
20 16 0.35
21 6 0.13
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAATTATAAAAATGATT
Found at i:74628576 original size:24 final size:24
Alignment explanation
Indices: 74628499--74628576 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
74628489 TCAAAGTAAG
*
74628499 AATTTGACTTTTAAGTAATTTTAT
1 AATTTTACTTTTAAGTAATTTTAT
* *
74628523 AA-TTT--TTTTAA-CAATTTAAAAAAT
1 AATTTTACTTTTAAGTAATTT----TAT
74628547 AATTTTACTTTTAAGTAATTTTAT
1 AATTTTACTTTTAAGTAATTTTAT
74628571 AATTTT
1 AATTTT
74628577 TTTAACAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
20 5 0.12
21 6 0.15
23 2 0.05
24 14 0.34
25 3 0.07
27 6 0.15
28 5 0.12
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
AATTTTACTTTTAAGTAATTTTAT
Found at i:74628596 original size:24 final size:24
Alignment explanation
Indices: 74628521--74628600 Score: 78
Period size: 24 Copynumber: 3.3 Consensus size: 24
74628511 AAGTAATTTT
74628521 ATAATTTTTTTAACAATTTAAAAA
1 ATAATTTTTTTAACAATTTAAAAA
* *
74628545 ATAATTTTACTTTTAAGTAATTT----T
1 ATAA-TTT--TTTTAA-CAATTTAAAAA
74628569 ATAATTTTTTTAACAATTTAAAAA
1 ATAATTTTTTTAACAATTTAAAAA
74628593 ATAATTTT
1 ATAATTTT
74628601 ATTTTTTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
20 5 0.11
21 6 0.14
23 3 0.07
24 16 0.36
25 3 0.07
27 6 0.14
28 5 0.11
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (24 bp):
ATAATTTTTTTAACAATTTAAAAA
Found at i:74628627 original size:48 final size:48
Alignment explanation
Indices: 74628499--74628616 Score: 202
Period size: 48 Copynumber: 2.5 Consensus size: 48
74628489 TCAAAGTAAG
*
74628499 AATTTGACTTTTAAGTAATTTTATAATTTTTTTAACAATTTAAAAAAT
1 AATTTTACTTTTAAGTAATTTTATAATTTTTTTAACAATTTAAAAAAT
74628547 AATTTTACTTTTAAGTAATTTTATAATTTTTTTAACAATTTAAAAAAT
1 AATTTTACTTTTAAGTAATTTTATAATTTTTTTAACAATTTAAAAAAT
* *
74628595 AATTTTATTTTTTA-TAATTTTA
1 AATTTTACTTTTAAGTAATTTTA
74628617 AAATACTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
47 8 0.12
48 59 0.88
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (48 bp):
AATTTTACTTTTAAGTAATTTTATAATTTTTTTAACAATTTAAAAAAT
Found at i:74641421 original size:47 final size:48
Alignment explanation
Indices: 74641351--74641616 Score: 202
Period size: 47 Copynumber: 5.7 Consensus size: 48
74641341 GTAAGGTGCA
* *
74641351 GATGCCATGTCCCAGACACGGTCTTACACTAGCTCAT-ATCTCATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCATGCC
*
74641398 GATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTCAT-GCC
* * * * *
74641446 GATG-CATGTCCCAGACAT-GTCTTACACTGGTTTA-CGTTTCGA-GACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTC-ATG-CC
* * * * *
74641492 AATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTTGATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATC-TCATGCC
* * *
74641538 GATGCCATGTCCCAGACATGGTCTTACACT-GACTC-TCATAAT-GTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCAT-CTCAT-GCC
*
74641586 AATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
74641617 CCACAATAAC
Statistics
Matches: 182, Mismatches: 21, Indels: 33
0.77 0.09 0.14
Matches are distributed among these distances:
45 1 0.01
46 67 0.37
47 86 0.47
48 28 0.15
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCATGCC
Found at i:74641608 original size:140 final size:140
Alignment explanation
Indices: 74641356--74641613 Score: 371
Period size: 140 Copynumber: 1.8 Consensus size: 140
74641346 GTGCAGATGC
74641356 CATGTCCCAGACACGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACACGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAGACATGGTC
* *
74641421 TTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGTTTACGTTTC
66 TTACACTGACTATCATATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGTTTACGTTTC
74641486 GAGACCAATG
131 GAGACCAATG
* * * *
74641496 CATGTCCCAGACA-TGTCTTACACTAGCAC-TCGTCTTGATG-CTGATGCCATGTCCCAGACATG
1 CATGTCCCAGACACGGTCTTACACTAGCTCAT-ATC-TCATGTC-GATGCCATGTCCCAGACATG
* * *
74641558 GTCTTACACTGACTCTCATAAT-GTGGCTAATGCATGTCCCAGACATGTCTTACACT
63 GTCTTACACTGACTATCAT-ATCGTAGCCAATGCATGTCCCAGACATGTCTTACACT
74641614 AGCCCACAAT
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
138 1 0.01
139 17 0.16
140 86 0.82
141 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACACGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAGACATGGTC
TTACACTGACTATCATATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGTTTACGTTTC
GAGACCAATG
Found at i:74647933 original size:43 final size:43
Alignment explanation
Indices: 74647882--74648031 Score: 167
Period size: 43 Copynumber: 3.5 Consensus size: 43
74647872 ATATCCAGAT
* * * * *
74647882 ATGGTCTTACATGTTATCACATATCGATGCCACTATCCCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAGAC
* * * * *
74647925 AAGGTCTTACACGAAATTATATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAGAC
* * *
74647968 ATGGTCTTACACATAATCACAAAT-AATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAGAC
*
74648010 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
74648032 CTCGGTAACC
Statistics
Matches: 86, Mismatches: 21, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 36 0.42
43 50 0.58
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCTAGAC
Found at i:74648007 original size:42 final size:42
Alignment explanation
Indices: 74647951--74648030 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
74647941 TTATATAACG
74647951 ATGCCAATGTCCTAGACATGGTCTTACACATAATCACAAATA
1 ATGCCAATGTCCTAGACATGGTCTTACACATAATCACAAATA
**
74647993 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCTAGACATGGTCTTACACATAATCACA
74648031 TCTCGGTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCTAGACATGGTCTTACACATAATCACAAATA
Found at i:74652792 original size:23 final size:21
Alignment explanation
Indices: 74652762--74652808 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 21
74652752 AGCCCACATC
74652762 AAAAAATAAAAATAAAAATTTCA
1 AAAAAATAAAAA-AAAAATTT-A
*
74652785 AAAAAATAAAAAAAATATTTA
1 AAAAAATAAAAAAAAAATTTA
74652806 AAA
1 AAA
74652809 TTATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.17
22 7 0.30
23 12 0.52
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAAATAAAAAAAAAATTTA
Found at i:74652945 original size:19 final size:17
Alignment explanation
Indices: 74652904--74652990 Score: 68
Period size: 18 Copynumber: 4.6 Consensus size: 17
74652894 TCTATTCTAG
74652904 AATTATAAAAAT-ATAATA
1 AATTATAAAAATAAT-A-A
74652922 AATTATAAAAATAATTAA
1 AATTATAAAAATAA-TAA
*
74652940 ACATTATAAAAATTATTAGA
1 A-ATTATAAAAA-TAATA-A
74652960 AATTAATTAAAAATAATAA
1 AATT-A-TAAAAATAATAA
*
74652979 ATTTTATAAAAA
1 A-ATTATAAAAA
74652991 ATATTATATT
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
18 20 0.34
19 20 0.34
20 12 0.21
21 6 0.10
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (17 bp):
AATTATAAAAATAATAA
Found at i:74652992 original size:19 final size:18
Alignment explanation
Indices: 74652906--74653004 Score: 67
Period size: 19 Copynumber: 5.3 Consensus size: 18
74652896 TATTCTAGAA
74652906 TTATAAAAATATAATAAA-
1 TTATAAAAA-ATAATAAAT
*
74652924 TTAT-AAAAATAATTAAACA
1 TTATAAAAAATAA-TAAA-T
* *
74652943 TTATAAAAATTATTAGAAAT
1 TTATAAAAA--ATAATAAAT
* *
74652963 TAATTAAAAATAATAAATT
1 TTATAAAAAATAATAAA-T
* *
74652982 TTATAAAAAATATTATAT
1 TTATAAAAAATAATAAAT
74653000 TTATA
1 TTATA
74653005 TTTTAACTCA
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
16 4 0.06
17 8 0.13
18 16 0.25
19 18 0.29
20 11 0.17
21 3 0.05
22 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (18 bp):
TTATAAAAAATAATAAAT
Found at i:74653200 original size:11 final size:11
Alignment explanation
Indices: 74653184--74653219 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
74653174 TATTAATAAA
*
74653184 TTTTAATGATT
1 TTTTAATTATT
74653195 TTTTAATTATT
1 TTTTAATTATT
74653206 TTTATAATTATT
1 TTT-TAATTATT
74653218 TT
1 TT
74653220 ATGTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
TTTTAATTATT
Found at i:74653213 original size:12 final size:12
Alignment explanation
Indices: 74653187--74653235 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 12
74653177 TAATAAATTT
*
74653187 TAATGATTTTT-
1 TAATTATTTTTA
74653198 TAATTATTTTTA
1 TAATTATTTTTA
74653210 TAATTA-TTTTA
1 TAATTATTTTTA
*
74653221 T-GTT-TTTTTA
1 TAATTATTTTTA
74653231 TAATT
1 TAATT
74653236 CTAGAATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 8 0.25
11 18 0.56
12 6 0.19
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (12 bp):
TAATTATTTTTA
Found at i:74653214 original size:29 final size:31
Alignment explanation
Indices: 74653151--74653214 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 31
74653141 GGTTTTAAAT
74653151 TAATTTCTAATAATTTTTATAAATATTAATA
1 TAATTTCTAATAATTTTTATAAATATTAATA
* * **
74653182 -AATTT-TAATGATTTTT-TAATTATTTTTA
1 TAATTTCTAATAATTTTTATAAATATTAATA
74653210 TAATT
1 TAATT
74653215 ATTTTATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 9 0.32
29 14 0.50
30 5 0.18
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (31 bp):
TAATTTCTAATAATTTTTATAAATATTAATA
Found at i:74653219 original size:21 final size:22
Alignment explanation
Indices: 74653143--74653220 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 22
74653133 AATTTTATGG
74653143 TTTTA-AATTAATTTCTAAT-AAT
1 TTTTATAATT-ATTT-TAATAAAT
*
74653165 TTTTATAA--ATATTAATAAAT
1 TTTTATAATTATTTTAATAAAT
* * *
74653185 TTTAATGATT-TTTTAAT-TAT
1 TTTTATAATTATTTTAATAAAT
74653205 TTTTATAATTATTTTA
1 TTTTATAATTATTTTA
74653221 TGTTTTTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
19 4 0.09
20 22 0.50
21 11 0.25
22 5 0.11
23 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (22 bp):
TTTTATAATTATTTTAATAAAT
Found at i:74653318 original size:6 final size:7
Alignment explanation
Indices: 74653300--74653324 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
74653290 TTTTTTAAAT
74653300 ATTTTTA
1 ATTTTTA
74653307 ATTTTTA
1 ATTTTTA
74653314 ATTTTTA
1 ATTTTTA
74653321 ATTT
1 ATTT
74653325 ATGTTGATGT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTA
Found at i:74653353 original size:74 final size:74
Alignment explanation
Indices: 74653274--74653424 Score: 284
Period size: 74 Copynumber: 2.0 Consensus size: 74
74653264 ATAATTTATC
*
74653274 TAGATTCATTGTATATTTTTTTAAATATTTTTAATTTTTAATTTTTAATTTATGTTGATGTGGCA
1 TAGATTCATTGTATATTTTTTAAAATATTTTTAATTTTTAATTTTTAATTTATGTTGATGTGGCA
74653339 CTCTCACCA
66 CTCTCACCA
74653348 TAGATTCATTGTATATTTTTTAAAATATTTTTAATTTTTAATTTTTAATTTATGTTGATGTGGCA
1 TAGATTCATTGTATATTTTTTAAAATATTTTTAATTTTTAATTTTTAATTTATGTTGATGTGGCA
*
74653413 CTGTCACCA
66 CTCTCACCA
74653422 TAG
1 TAG
74653425 CAATTAGCGC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.53
Consensus pattern (74 bp):
TAGATTCATTGTATATTTTTTAAAATATTTTTAATTTTTAATTTTTAATTTATGTTGATGTGGCA
CTCTCACCA
Found at i:74653392 original size:6 final size:7
Alignment explanation
Indices: 74653374--74653398 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
74653364 TTTTTAAAAT
74653374 ATTTTTA
1 ATTTTTA
74653381 ATTTTTA
1 ATTTTTA
74653388 ATTTTTA
1 ATTTTTA
74653395 ATTT
1 ATTT
74653399 ATGTTGATGT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTA
Found at i:74654759 original size:30 final size:30
Alignment explanation
Indices: 74654725--74654787 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
74654715 CTTTATTTTA
*
74654725 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
*
74654755 TTGTTAATTTTTTTATTATTTTAAAAGCAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
74654785 TTG
1 TTG
74654788 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAAGCAT
Found at i:74655540 original size:41 final size:41
Alignment explanation
Indices: 74655461--74655721 Score: 391
Period size: 41 Copynumber: 6.4 Consensus size: 41
74655451 CGTTTTACCA
* * *
74655461 AAAACGCCGCTAAAA-ACTGAGCAATAGTGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
*
74655501 AAAGCGCCGCTAAAAGACAGAG-ATTTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCA-TTAGCGGCGCTTTTGGT
* * *
74655542 AAAACGCCGCTAAAAGATAGAGCTTTAGCGGCGCTTTTAGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
*
74655583 AAAACGCCGCTAAAAGACAGAGCAGTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* * * *
74655624 AAAACGTCGCGAAAAGACATAGCAGTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
74655665 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
74655706 AAAACGCCGCTAAAAG
1 AAAACGCCGCTAAAAG
74655722 TCATATAACT
Statistics
Matches: 199, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
40 15 0.08
41 184 0.92
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
Found at i:74655639 original size:123 final size:123
Alignment explanation
Indices: 74655430--74655721 Score: 401
Period size: 123 Copynumber: 2.4 Consensus size: 123
74655420 GCAAAAATTG
* * * ** * *
74655430 TAAAACACAAAGCAATAGCGGCG-TTTTACCAAAAACGCCGCTAAAA-ACTGAGCAATAGTGGCG
1 TAAAAGACAGAGCATTAGCGGCGCTTTTA-GTAAAACGCCGCTAAAAGACAGAGCAATAGCGGCG
* * *
74655493 CTTTTGGTAAAGCGCCGCTAAAAGACAGAG-ATTTAGCGGCGCTTTTGGTAAAACGCCGC
65 CTTTTGGTAAAACGCCGCGAAAAGACAGAGCA-GTAGCGGCGCTTTTGGTAAAACGCCGC
* * *
74655552 TAAAAGATAGAGCTTTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAGACAGAGCAGTAGCGGCGC
1 TAAAAGACAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAGACAGAGCAATAGCGGCGC
* *
74655617 TTTTGGTAAAACGTCGCGAAAAGACATAGCAGTAGCGGCGCTTTTGGTAAAACGCCGC
66 TTTTGGTAAAACGCCGCGAAAAGACAGAGCAGTAGCGGCGCTTTTGGTAAAACGCCGC
*
74655675 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAG
1 TAAAAGACAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAG
74655722 TCATATAACT
Statistics
Matches: 149, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
122 33 0.22
123 115 0.77
124 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (123 bp):
TAAAAGACAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAGACAGAGCAATAGCGGCGC
TTTTGGTAAAACGCCGCGAAAAGACAGAGCAGTAGCGGCGCTTTTGGTAAAACGCCGC
Done.